Back to Long Tests report for BioC 3.20

This page was generated on 2024-06-08 23:55 -0400 (Sat, 08 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4672
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4407
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4434
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 6/32HostnameOS / ArchCHECK
biodbChebi 1.11.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-06-08 09:55 -0400 (Sat, 08 Jun 2024)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: dfe3f6c
git_last_commit_date: 2024-04-30 11:37:31 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK  
palomino4Windows Server 2022 Datacenter / x64  OK  
merida1macOS 12.7.4 Monterey / x86_64  OK  

CHECK results for biodbChebi on merida1

To the developers/maintainers of the biodbChebi package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.11.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.11.0.tar.gz
StartedAt: 2024-06-08 16:01:14 -0400 (Sat, 08 Jun 2024)
EndedAt: 2024-06-08 16:05:48 -0400 (Sat, 08 Jun 2024)
EllapsedTime: 273.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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Type 'contributors()' for more information and
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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2024-06-08 16:02:02.605][biodb::testContext]
biodb.INFO [2024-06-08 16:02:02.610][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-08 16:02:02.611][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-06-08 16:02:02.613][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-08 16:02:02.614][biodb::testContext]
biodb.INFO [2024-06-08 16:02:02.623][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-08 16:02:02.626][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-08 16:02:02.637][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-08 16:02:02.639][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-08 16:02:02.641][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-08 16:02:02.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.647][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-08 16:02:02.681][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-08 16:02:02.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.687][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-08 16:02:02.689][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-08 16:02:02.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.695][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-08 16:02:02.696][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-08 16:02:02.698][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-08 16:02:02.699][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.714][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-08 16:02:02.716][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-08 16:02:02.717][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-08 16:02:02.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.722][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-08 16:02:02.723][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-08 16:02:02.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.727][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-08 16:02:02.729][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-08 16:02:02.730][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-08 16:02:02.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.734][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-08 16:02:02.736][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-08 16:02:02.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.740][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-08 16:02:02.742][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-08 16:02:02.743][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-08 16:02:02.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.747][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-08 16:02:02.749][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-08 16:02:02.750][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-08 16:02:02.751][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-08 16:02:02.752][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-08 16:02:02.754][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-08 16:02:02.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.758][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-08 16:02:02.760][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-08 16:02:02.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.764][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-08 16:02:02.765][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-08 16:02:02.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.770][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-08 16:02:02.771][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-08 16:02:02.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.776][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-08 16:02:02.777][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-08 16:02:02.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.782][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-08 16:02:02.783][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-08 16:02:02.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.788][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-08 16:02:02.789][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-08 16:02:02.804][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-08 16:02:02.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.808][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-08 16:02:02.810][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-08 16:02:02.811][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-08 16:02:02.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:02.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:02.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:02.818][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-08 16:02:02.862][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.884][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-08 16:02:02.885][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.887][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-08 16:02:02.888][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.889][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.890][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.892][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.893][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-08 16:02:02.894][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-08 16:02:02.895][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.897][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-08 16:02:02.898][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-08 16:02:02.899][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.900][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.902][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-08 16:02:02.902][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-08 16:02:02.902][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-08 16:02:02.902][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-08 16:02:02.902][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-08 16:02:02.903][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-08 16:02:02.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:02.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:02.906][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-08 16:02:02.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:02.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:02.910][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.911][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.912][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-08 16:02:02.913][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-08 16:02:02.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.916][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.917][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-08 16:02:02.919][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.921][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-08 16:02:02.922][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.923][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-08 16:02:02.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.926][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.927][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.929][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-08 16:02:02.931][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-08 16:02:02.932][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.933][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-08 16:02:02.934][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-08 16:02:02.936][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.938][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-08 16:02:02.938][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-08 16:02:02.938][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-08 16:02:02.938][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-08 16:02:02.938][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-08 16:02:02.939][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-08 16:02:02.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:02.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:02.943][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-08 16:02:02.944][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:02.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:02.947][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.948][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.949][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-08 16:02:02.950][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-08 16:02:02.951][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.953][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.954][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-08 16:02:02.956][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.957][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-08 16:02:02.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.960][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-08 16:02:02.961][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.962][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.964][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.965][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.967][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-08 16:02:02.968][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-08 16:02:02.975][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.976][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-08 16:02:02.977][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-08 16:02:02.979][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.980][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:02.981][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.982][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-08 16:02:02.983][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:02.985][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:02.986][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-08 16:02:02.987][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:02.988][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:02.989][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-08 16:02:02.990][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.991][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-08 16:02:02.993][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-08 16:02:02.994][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:02.995][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:02.997][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-08 16:02:02.999][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.000][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-08 16:02:03.002][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.003][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-08 16:02:03.004][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.006][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-08 16:02:03.007][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:03.008][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-08 16:02:03.009][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-08 16:02:03.010][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-08 16:02:03.012][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:03.013][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-08 16:02:03.014][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-08 16:02:03.015][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:03.016][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.018][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:03.019][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-08 16:02:03.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:03.021][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:03.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-08 16:02:03.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:03.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:03.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-08 16:02:03.027][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:03.028][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-08 16:02:03.029][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-08 16:02:03.030][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:03.032][self$setPropertyValue]
biodb.DEBUG[2024-06-08 16:02:03.036][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-08 16:02:03.037][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.083][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.133][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-08 16:02:03.138][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-08 16:02:03.140][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-08 16:02:03.141][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-08 16:02:03.143][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-08 16:02:03.145][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-08 16:02:03.147][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-08 16:02:03.148][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-08 16:02:03.150][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-08 16:02:03.152][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-08 16:02:03.153][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-08 16:02:03.155][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-08 16:02:03.157][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-08 16:02:03.158][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-08 16:02:03.160][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-08 16:02:03.162][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-08 16:02:03.163][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-08 16:02:03.165][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-08 16:02:03.167][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-08 16:02:03.169][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-08 16:02:03.170][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-08 16:02:03.172][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-08 16:02:03.174][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-08 16:02:03.176][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-08 16:02:03.177][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-08 16:02:03.179][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-08 16:02:03.181][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-08 16:02:03.182][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-08 16:02:03.184][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-08 16:02:03.186][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-08 16:02:03.187][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-08 16:02:03.189][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-08 16:02:03.191][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-08 16:02:03.193][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-08 16:02:03.194][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-08 16:02:03.196][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-08 16:02:03.198][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-08 16:02:03.199][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-08 16:02:03.201][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-08 16:02:03.203][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-08 16:02:03.204][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-08 16:02:03.206][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-08 16:02:03.208][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-08 16:02:03.210][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-08 16:02:03.211][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-08 16:02:03.218][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-08 16:02:03.220][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-08 16:02:03.222][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-08 16:02:03.223][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-08 16:02:03.225][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-08 16:02:03.227][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-08 16:02:03.228][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-08 16:02:03.230][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-08 16:02:03.232][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-08 16:02:03.233][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-08 16:02:03.235][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-08 16:02:03.237][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-08 16:02:03.239][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-08 16:02:03.240][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-08 16:02:03.242][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-08 16:02:03.244][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-08 16:02:03.246][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-08 16:02:03.247][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-08 16:02:03.249][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-08 16:02:03.251][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-08 16:02:03.252][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-08 16:02:03.254][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-08 16:02:03.256][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-08 16:02:03.258][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-08 16:02:03.259][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-08 16:02:03.261][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-08 16:02:03.263][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-08 16:02:03.265][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-08 16:02:03.267][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-08 16:02:03.268][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-08 16:02:03.270][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-08 16:02:03.272][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-08 16:02:03.274][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-08 16:02:03.275][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-08 16:02:03.277][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-08 16:02:03.279][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-08 16:02:03.280][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-08 16:02:03.282][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-08 16:02:03.290][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-08 16:02:03.292][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-08 16:02:03.295][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-08 16:02:03.297][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.299][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-08 16:02:03.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:03.446][biodb$loadDefinitions] Load definitions from file "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/definitions.yml".
biodb.DEBUG[2024-06-08 16:02:03.464][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-06-08 16:02:03.466][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:03.467][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-06-08 16:02:03.469][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.470][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-08 16:02:03.471][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.472][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-08 16:02:03.474][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.475][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-06-08 16:02:03.476][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-06-08 16:02:03.477][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-08 16:02:03.479][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.480][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-06-08 16:02:03.481][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-06-08 16:02:03.482][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-06-08 16:02:03.484][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-08 16:02:03.485][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-08 16:02:03.485][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-08 16:02:03.485][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-08 16:02:03.486][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-08 16:02:03.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:03.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:03.490][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-08 16:02:03.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-08 16:02:03.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-08 16:02:03.494][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-08 16:02:03.495][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:03.495][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-06-08 16:02:03.496][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-08 16:02:03.497][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-08 16:02:03.499][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-08 16:02:03.500][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-06-08 16:02:03.500][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-06-08 16:02:03.508][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-08 16:02:03.510][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-08 16:02:03.512][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-06-08 16:02:03.514][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-08 16:02:03.516][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-08 16:02:03.518][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-08 16:02:03.544][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-06-08 16:02:03.545][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-06-08 16:02:03.550][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-06-08 16:02:03.555][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-06-08 16:02:03.560][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-08 16:02:03.561][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-08 16:02:03.563][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-06-08 16:02:03.564][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-06-08 16:02:03.576][biodb::testThat]
biodb.INFO [2024-06-08 16:02:03.577][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-08 16:02:03.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:03.580][biodb::testThat]
biodb.TRACE[2024-06-08 16:02:03.584][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-06-08 16:02:03.587][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:03.591][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:03.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:03.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:03.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:03.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:03.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:03.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:03.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:03.636][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.664][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:03.665][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:03.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.667][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.705][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:03.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:03.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.710][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:03.712][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:03.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.714][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:03.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:03.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.721][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:03.731][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:03.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:03.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:03.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.740][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.744][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.750][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:03.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:03.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.754][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.756][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:03.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:03.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.760][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:03.762][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:03.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.764][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.766][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:03.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:03.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.771][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:03.772][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:03.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:03.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:03.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.781][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:03.782][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:03.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.785][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:03.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:03.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:03.793][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:03.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:03.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:03.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.802][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:03.803][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:03.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.806][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.807][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:03.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:03.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:03.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:03.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:03.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:03.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:03.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:03.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:03.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:03.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:03.910][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-06-08 16:02:03.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:03.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:03.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:03.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:03.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:03.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:03.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:03.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.008][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:04.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:04.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.013][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:04.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:04.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.018][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:04.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:04.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.023][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:04.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:04.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.154][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.155][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.158][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.194][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.197][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.198][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.214][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.224][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.229][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.234][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.255][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.260][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.265][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.266][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.269][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.301][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.302][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.304][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.340][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.367][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.372][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.373][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.381][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.382][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.402][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.407][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.412][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.413][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.417][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.432][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.438][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.443][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.448][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.452][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.454][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.469][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.475][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.480][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.485][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.487][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.520][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.524][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.551][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.556][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.558][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.560][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.577][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.587][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.593][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.602][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.604][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.612][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.614][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.634][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.642][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.644][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.646][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.653][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.654][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.663][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.667][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.674][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.675][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.678][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.684][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.685][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.688][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.711][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-2528-content.xml".
biodb.DEBUG[2024-06-08 16:02:04.761][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:04.763][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:04.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:04.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:04.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:04.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:04.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:04.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:04.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:04.779][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.781][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.783][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.821][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.823][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.826][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.827][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:04.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:04.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.833][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.837][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:04.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:04.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.845][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.846][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.849][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:04.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:04.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.856][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:04.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.867][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.868][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.872][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:04.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.877][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:04.879][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.883][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:04.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:04.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.888][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.889][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:04.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.898][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.902][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:04.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:04.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.909][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:04.911][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.914][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:04.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:04.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.920][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.921][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.925][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:04.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:04.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:04.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:04.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:04.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:04.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:04.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:04.981][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 2528.
biodb.TRACE[2024-06-08 16:02:05.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.044][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.054][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:05.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:05.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.059][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:05.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:05.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.173][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.234][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.249][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.253][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.270][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.276][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.287][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.290][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.307][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:05.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.323][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:05.325][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.327][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.328][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:05.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.362][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.364][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.396][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.397][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.400][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.416][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.427][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.432][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.437][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.438][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.442][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.457][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.467][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.472][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.474][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.476][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.492][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.497][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.502][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.507][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.509][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.511][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.512][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.527][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.537][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.544][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.577][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.579][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.581][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.613][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.614][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.637][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.641][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.647][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.648][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.656][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.658][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.660][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.666][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.668][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.670][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.676][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.677][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.680][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.686][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.688][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.690][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.696][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.698][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.700][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.708][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.710][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.717][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.718][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.720][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.727][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.729][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.731][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.737][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.739][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.748][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck/biodbChebi/testref/entry-chebi-7799-content.xml".
biodb.DEBUG[2024-06-08 16:02:05.750][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:05.751][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:05.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:05.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:05.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:05.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:05.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:05.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:05.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:05.768][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.769][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.772][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.779][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.780][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.784][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:05.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:05.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.789][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.791][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.793][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:05.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:05.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.800][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.801][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.805][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.811][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.812][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.821][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.823][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.825][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.827][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:05.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.832][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:05.833][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.836][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.837][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:05.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.843][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:05.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.857][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:05.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:05.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.868][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:05.869][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:05.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:05.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.878][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.883][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:05.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:05.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:05.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:05.938][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 7799.
biodb.TRACE[2024-06-08 16:02:05.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:05.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:05.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:05.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:05.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.969][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.974][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:05.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.979][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:05.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:05.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.984][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:05.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:05.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:05.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:05.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:05.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:05.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:06.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.085][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.086][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.104][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:06.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:06.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.109][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:06.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:06.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:06.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:06.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:06.120][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:06.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:06.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:06.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.139][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:06.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:06.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.144][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:06.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:06.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:06.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:06.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.154][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:06.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:06.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:06.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:06.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.188][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.209][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.214][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.219][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.224][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.225][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.228][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.229][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.263][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.264][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.296][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.316][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:06.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:06.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.321][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:06.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:06.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.326][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:06.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:06.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.331][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:06.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:06.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:06.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:06.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.366][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.367][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.369][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.371][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:06.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:06.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:06.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:06.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.396][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:06.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:06.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.401][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:06.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:06.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.405][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:06.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:06.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:06.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:06.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.426][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:06.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:06.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.430][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:06.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:06.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.435][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:06.437][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:06.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:06.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:06.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.460][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:06.461][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:06.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.463][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.469][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:06.471][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:06.472][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.473][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.479][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:06.480][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:06.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.489][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:06.490][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:06.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.493][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.500][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:06.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.503][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.509][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.510][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:06.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.513][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.519][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.520][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:06.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.522][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.529][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.530][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:06.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.532][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.539][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.540][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:06.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.543][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.549][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:06.550][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:06.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.553][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:06.559][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:06.560][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:06.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:06.563][ef$get] fields variable is a list.
biodb.INFO [2024-06-08 16:02:06.573][biodb::testThat]
biodb.INFO [2024-06-08 16:02:06.574][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-08 16:02:06.576][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:06.577][biodb::testThat]
biodb.DEBUG[2024-06-08 16:02:06.579][private$loadEntries] Creating entries from ids [3]: "15440, 2528, 7799".
biodb.DEBUG[2024-06-08 16:02:06.587][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-06-08 16:02:06.591][cch$loadFileContent] Trying to load 3 files from cache: [3]: "15440, 2528, 7799".
biodb.INFO [2024-06-08 16:02:06.593][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-06-08 16:02:06.594][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-06-08 16:02:06.596][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:06.597][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:06.598][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:06.600][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:06.601][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:06.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:06.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:06.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:06.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:06.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:06.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:06.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:06.622][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.DEBUG[2024-06-08 16:02:06.650][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:06.651][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:06.653][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440".
biodb.TRACE[2024-06-08 16:02:12.904][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15440).
biodb.DEBUG[2024-06-08 16:02:13.363][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:13.366][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.content"
biodb.TRACE[2024-06-08 16:02:13.385][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5c6fb88c946e8568cc03c0d73dc5603e.request"
biodb.DEBUG[2024-06-08 16:02:13.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:13.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:13.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:13.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:13.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:13.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:13.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:13.440][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-06-08 16:02:13.462][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:13.463][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:13.484][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-06-08 16:02:13.853][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-06-08 16:02:14.222][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:14.224][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-06-08 16:02:14.229][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-06-08 16:02:14.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:14.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:14.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:14.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:14.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:14.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:14.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:14.244][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-06-08 16:02:14.247][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:14.249][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:14.250][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-06-08 16:02:14.619][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-06-08 16:02:14.988][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:14.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-06-08 16:02:14.995][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-06-08 16:02:14.998][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-06-08 16:02:15.001][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:15.003][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-06-08 16:02:15.004][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:15.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:15.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:15.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:15.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:15.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:15.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:15.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:15.021][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.031][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:15.033][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:15.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.036][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:15.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:15.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.051][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:15.053][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:15.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.057][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:15.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:15.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.062][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:15.063][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:15.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.065][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:15.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:15.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.072][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.073][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.076][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.083][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.084][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.086][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.088][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.093][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:15.094][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:15.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.097][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.098][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:15.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:15.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.103][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.105][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.107][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.113][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.115][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.117][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.119][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.124][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:15.125][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:15.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.127][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.129][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:15.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:15.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.134][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:15.135][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:15.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.137][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.139][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:15.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:15.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:15.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:15.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:15.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:15.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:15.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:15.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:15.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:15.194][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.195][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.198][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.208][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:15.210][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:15.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.212][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.213][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:15.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:15.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.218][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:15.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:15.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.222][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.224][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:15.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:15.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.228][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:15.230][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:15.231][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.232][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:15.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:15.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.239][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.240][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.242][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.249][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.250][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.253][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.254][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.259][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:15.261][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:15.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.263][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.265][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:15.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:15.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.270][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.274][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.280][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.281][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.284][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.291][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:15.292][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:15.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.294][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.296][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:15.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:15.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.302][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:15.303][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:15.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.305][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.307][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:15.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:15.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:15.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:15.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:15.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:15.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:15.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:15.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:15.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:15.367][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.371][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.378][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:15.379][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:15.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.382][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.383][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:15.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:15.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.388][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:15.390][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:15.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.394][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:15.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:15.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.399][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:15.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:15.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.402][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:15.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:15.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.409][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.410][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:15.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.419][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.421][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.423][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:15.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.430][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:15.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:15.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.435][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:15.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:15.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.440][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.444][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:15.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.450][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.454][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:15.462][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:15.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.465][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:15.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:15.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:15.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:15.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.477][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:15.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:15.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:15.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:15.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:15.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:15.566][self$createEntryFromContent] Accession numbers: 15440, 2528, 7799.
biodb.TRACE[2024-06-08 16:02:15.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-08 16:02:15.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-08 16:02:15.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-08 16:02:15.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-08 16:02:15.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-08 16:02:15.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-08 16:02:15.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-08 16:02:15.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-08 16:02:15.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-08 16:02:15.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-08 16:02:15.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-08 16:02:15.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-08 16:02:15.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-08 16:02:15.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-08 16:02:15.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-08 16:02:15.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-08 16:02:15.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-08 16:02:15.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-08 16:02:15.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:02:15.632][biodb::testThat]
biodb.INFO [2024-06-08 16:02:15.633][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-08 16:02:15.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:15.636][biodb::testThat]
biodb.TRACE[2024-06-08 16:02:15.639][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.641][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.643][ef$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:15.645][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-06-08 16:02:15.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:15.694][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:15.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:15.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:15.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:15.702][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-06-08 16:02:15.705][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-06-08 16:02:15.709][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:15.710][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:15.712][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-06-08 16:02:16.076][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-06-08 16:02:16.530][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:16.533][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-06-08 16:02:16.538][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-06-08 16:02:16.542][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:16.547][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:16.548][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:16.550][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:17.050][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:17.542][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:17.545][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-06-08 16:02:17.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-06-08 16:02:17.553][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-06-08 16:02:17.569][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:17.571][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:17.572][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.573][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.576][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.578][ef$get] fields variable is a list.
biodb.INFO [2024-06-08 16:02:17.584][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.585][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-08 16:02:17.587][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:17.588][biodb::testThat]
biodb.TRACE[2024-06-08 16:02:17.621][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:17.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:17.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:17.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:17.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:17.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:17.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:17.720][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:17.748][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:17.769][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:17.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:17.773][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-06-08 16:02:17.812][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.813][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-08 16:02:17.814][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:17.815][biodb::testThat]
biodb.TRACE[2024-06-08 16:02:17.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:17.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:17.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:17.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:17.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.857][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.862][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.867][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:17.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:17.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:17.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:17.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:17.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:17.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:17.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:17.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:17.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:17.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.924][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-08 16:02:17.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.929][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:17.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-08 16:02:17.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:17.934][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:17.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-08 16:02:17.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:17.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:02:17.946][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.947][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-08 16:02:17.948][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:17.949][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.965][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.966][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-08 16:02:17.968][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:17.969][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.981][biodb::testThat]
biodb.INFO [2024-06-08 16:02:17.983][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-08 16:02:17.984][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:17.985][biodb::testThat]
biodb.DEBUG[2024-06-08 16:02:17.990][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-06-08 16:02:18.503][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-06-08 16:02:19.301][biodb::testThat]
biodb.INFO [2024-06-08 16:02:19.302][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-08 16:02:19.303][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:19.304][biodb::testThat]
biodb.DEBUG[2024-06-08 16:02:19.708][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2024-06-08 16:02:20.107][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:20.108][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:20.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.110][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.112][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:20.113][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:20.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.115][ef$get] fields variable is a list.
biodb.INFO [2024-06-08 16:02:20.117][biodb::testThat]
biodb.INFO [2024-06-08 16:02:20.119][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-06-08 16:02:20.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:20.121][biodb::testThat]
biodb.TRACE[2024-06-08 16:02:20.135][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:20.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:20.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.140][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:20.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:20.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:20.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:20.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:20.258][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:20.262][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:20.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:20.266][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:20.267][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-08 16:02:20.359][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:20.363][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:20.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:20.366][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:20.368][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-06-08 16:02:20.385][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:02:20.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:02:20.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:20.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:20.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:20.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:20.429][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:20.433][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:20.435][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:20.437][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:20.808][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:21.176][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:21.183][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-06-08 16:02:21.188][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-06-08 16:02:21.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:21.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:21.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:21.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:21.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:21.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:21.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:21.222][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-06-08 16:02:21.306][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:21.308][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-06-08 16:02:21.309][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:21.311][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:21.312][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:21.313][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:21.315][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:21.316][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:21.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:21.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:21.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:21.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:21.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:21.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:21.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:21.348][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-06-08 16:02:21.351][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:21.352][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:21.354][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-06-08 16:02:21.725][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-06-08 16:02:22.093][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:22.096][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-06-08 16:02:22.101][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-06-08 16:02:22.104][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-06-08 16:02:22.106][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:22.107][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:22.109][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:22.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:22.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:22.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:22.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:22.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:22.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:22.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:22.125][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.127][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.129][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.136][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:22.137][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:22.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.147][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.148][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:22.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:22.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.153][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:22.155][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:22.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:22.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:22.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.164][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:22.165][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:22.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.168][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:22.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:22.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.174][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:22.176][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:22.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.178][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:22.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:22.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.184][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:22.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:22.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.188][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.190][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:22.191][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.193][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.195][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.200][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:22.201][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:22.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:22.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:22.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.210][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:22.212][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:22.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.216][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:22.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:22.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.221][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:22.222][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:22.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:22.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.231][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:22.233][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:22.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.235][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.237][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:22.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:22.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:22.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:22.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:22.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:22.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:22.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:22.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:22.297][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-06-08 16:02:22.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:22.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:22.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:22.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:22.326][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:22.330][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:22.332][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:22.334][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:22.704][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:23.075][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:23.078][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-06-08 16:02:23.083][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-06-08 16:02:23.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:23.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:23.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:23.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:23.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:23.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:23.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:23.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:23.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:23.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:23.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:23.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:23.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:23.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:23.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:23.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:23.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:23.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:23.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:23.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:23.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:23.146][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-06-08 16:02:23.147][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:23.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-06-08 16:02:23.151][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:23.152][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:23.153][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:23.155][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:23.156][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:23.157][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:23.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:23.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:23.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:23.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:23.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:23.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:23.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:23.183][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-06-08 16:02:23.186][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:23.188][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:23.190][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-06-08 16:02:23.560][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-06-08 16:02:23.928][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:23.930][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-06-08 16:02:23.935][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-06-08 16:02:23.938][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-06-08 16:02:23.940][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:23.942][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:23.943][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:23.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:23.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:23.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:23.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:23.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:23.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:23.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:23.959][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:23.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:23.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.963][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:23.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:23.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.969][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:23.970][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:23.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.973][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.974][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:23.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:23.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.979][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:23.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:23.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.983][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.985][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:23.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:23.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.990][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:23.991][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:23.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.993][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:23.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:23.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:23.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:23.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.000][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:24.001][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:24.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:24.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:24.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.010][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:24.011][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:24.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.015][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:24.016][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.020][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:24.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:24.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:24.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.029][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:24.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:24.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.035][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:24.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:24.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.048][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:24.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.053][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:24.054][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:24.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.057][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.058][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.063][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:24.065][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:24.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.068][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:24.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:24.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:24.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:24.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:24.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:24.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:24.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:24.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:24.123][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-06-08 16:02:24.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:24.162][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:24.167][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:24.168][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:24.170][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:24.171][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-08 16:02:24.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:24.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:24.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:24.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:24.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:24.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:24.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:24.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:24.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:24.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:24.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:24.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:24.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:24.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:24.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:24.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:24.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:24.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:24.220][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-06-08 16:02:24.221][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:24.223][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-06-08 16:02:24.225][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:24.226][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:24.227][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:24.228][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:24.230][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:24.231][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:24.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:24.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:24.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:24.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:24.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:24.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:24.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:24.247][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-06-08 16:02:24.250][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:24.252][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:24.253][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-06-08 16:02:24.624][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-06-08 16:02:24.992][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:24.994][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-06-08 16:02:24.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-06-08 16:02:25.002][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-06-08 16:02:25.004][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:25.005][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:25.007][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:25.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:25.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:25.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:25.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:25.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:25.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:25.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:25.023][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.033][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:25.035][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:25.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.038][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:25.040][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:25.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.042][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.044][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:25.045][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:25.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.049][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:25.050][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:25.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.053][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.054][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:25.056][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:25.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.060][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:25.061][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:25.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:25.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.076][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.078][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:25.079][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:25.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.083][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:25.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:25.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.088][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:25.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:25.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.092][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:25.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:25.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.099][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:25.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:25.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.102][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:25.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:25.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:25.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:25.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:25.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:25.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:25.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:25.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:25.154][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-06-08 16:02:25.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:25.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:25.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:25.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:25.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:25.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:25.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:25.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:25.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:25.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:25.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:25.194][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-06-08 16:02:25.195][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:25.197][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-06-08 16:02:25.199][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:25.200][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:25.201][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:25.203][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:25.204][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:25.205][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:25.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:25.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:25.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:25.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:25.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:25.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:25.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:25.227][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-06-08 16:02:25.231][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:25.232][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:25.234][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-06-08 16:02:25.603][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-06-08 16:02:25.972][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:25.975][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-06-08 16:02:25.980][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-06-08 16:02:25.984][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-06-08 16:02:25.986][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:25.987][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:25.989][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:25.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:25.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:25.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:25.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:26.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:26.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:26.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:26.005][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.007][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.009][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.016][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:26.017][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:26.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.021][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:26.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:26.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.024][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.026][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:26.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:26.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:26.032][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:26.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.036][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:26.037][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:26.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.041][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:26.043][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.046][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:26.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:26.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.052][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:26.053][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:26.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:26.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:26.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.062][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:26.064][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:26.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.066][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.068][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:26.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:26.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.073][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:26.074][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:26.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.076][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:26.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:26.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:26.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:26.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:26.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:26.134][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-06-08 16:02:26.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:26.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:26.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:26.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:26.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:26.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:26.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:26.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:26.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:26.174][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-06-08 16:02:26.175][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:26.177][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-06-08 16:02:26.178][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:26.180][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:26.181][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:26.183][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:26.184][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:26.185][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:26.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:26.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:26.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:26.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:26.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:26.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:26.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:26.201][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-06-08 16:02:26.205][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:26.206][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:26.208][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-06-08 16:02:26.576][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-06-08 16:02:26.946][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:26.949][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-06-08 16:02:26.953][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-06-08 16:02:26.957][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-06-08 16:02:26.959][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:26.960][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:26.961][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:26.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:26.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:26.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:26.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:26.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:26.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:26.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:26.985][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:26.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:26.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:26.995][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:26.996][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:26.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:26.999][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.000][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:27.002][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:27.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.006][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:27.007][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:27.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.009][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.011][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:27.012][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:27.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.016][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:27.017][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:27.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.021][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:27.022][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.024][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.026][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:27.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:27.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.031][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:27.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:27.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:27.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:27.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.042][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:27.043][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:27.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.047][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:27.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:27.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.052][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:27.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:27.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:27.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:27.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:27.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:27.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:27.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:27.107][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-06-08 16:02:27.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:27.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:27.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:27.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:27.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:27.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:27.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:27.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:27.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:27.150][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-06-08 16:02:27.151][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:27.153][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-06-08 16:02:27.155][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:27.156][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:27.157][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:27.158][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:27.160][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:27.161][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:27.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:27.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:27.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:27.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:27.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:27.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:27.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:27.177][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-06-08 16:02:27.181][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:27.182][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:27.184][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-06-08 16:02:27.553][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-06-08 16:02:27.923][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:27.925][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-06-08 16:02:27.930][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-06-08 16:02:27.933][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-06-08 16:02:27.935][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:27.937][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:27.938][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:27.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:27.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:27.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:27.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:27.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:27.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:27.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:27.955][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.956][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:27.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:27.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.965][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:27.966][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:27.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:27.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:27.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.975][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:27.977][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:27.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.979][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:27.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:27.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.990][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:27.995][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:27.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:27.997][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:28.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:28.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.004][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:28.005][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:28.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.007][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:28.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:28.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.014][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:28.015][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:28.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.019][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:28.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:28.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.024][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:28.026][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.029][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:28.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:28.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:28.037][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.038][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:28.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:28.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.045][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:28.046][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:28.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.049][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:28.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:28.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.056][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:28.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:28.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.061][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:28.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:28.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.066][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:28.067][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:28.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.070][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:28.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:28.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:28.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:28.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:28.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:28.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:28.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:28.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:28.126][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-06-08 16:02:28.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:28.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:28.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:28.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:28.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:28.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:28.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:28.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:28.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:28.160][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-06-08 16:02:28.162][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:28.163][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-06-08 16:02:28.165][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:28.166][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:28.168][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:28.169][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:28.170][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:28.171][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:28.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:28.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:28.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:28.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:28.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:28.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:28.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:28.188][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-06-08 16:02:28.191][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:28.193][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:28.194][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-06-08 16:02:28.562][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-06-08 16:02:28.934][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:28.937][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-06-08 16:02:28.941][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-06-08 16:02:28.944][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-06-08 16:02:28.946][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:28.948][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:28.949][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:28.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:28.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:28.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:28.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:28.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:28.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:28.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:28.966][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.967][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.969][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.970][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:28.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:28.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.976][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:28.978][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:28.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.982][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:28.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.987][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:28.988][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:28.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:28.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:28.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:28.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:28.998][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:28.999][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:29.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.003][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:29.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:29.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.016][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:29.017][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:29.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:29.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:29.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.026][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:29.027][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:29.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.031][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:29.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:29.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.036][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:29.038][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.042][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:29.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.047][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:29.048][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:29.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:29.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.057][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:29.058][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:29.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:29.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:29.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:29.069][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:29.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.071][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.073][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:29.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:29.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:29.079][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:29.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.083][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:29.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:29.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:29.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:29.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:29.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:29.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:29.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:29.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:29.138][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-06-08 16:02:29.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:29.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:29.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:29.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:29.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:29.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:29.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:29.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:29.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:29.172][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-06-08 16:02:29.173][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:29.175][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-06-08 16:02:29.177][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:29.178][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:29.179][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:29.181][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:29.182][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:29.183][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:29.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:29.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:29.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:29.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:29.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:29.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:29.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:29.200][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-06-08 16:02:29.204][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:29.205][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:29.207][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-06-08 16:02:29.577][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-06-08 16:02:29.950][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:29.952][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-06-08 16:02:29.956][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-06-08 16:02:29.960][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-06-08 16:02:29.962][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:29.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:29.965][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:29.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:29.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:29.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:29.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:29.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:29.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:29.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:29.981][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.985][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:29.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:29.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.991][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:29.993][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:29.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:29.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:29.996][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:29.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:29.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.001][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:30.003][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:30.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.005][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.007][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:30.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:30.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.012][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:30.013][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:30.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.015][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.017][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:30.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:30.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:30.023][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:30.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.027][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:30.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:30.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.039][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:30.040][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:30.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.043][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.044][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:30.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:30.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.054][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:30.055][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:30.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:30.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:30.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.064][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:30.065][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:30.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.068][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.069][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:30.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:30.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.074][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:30.076][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:30.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.078][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:30.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:30.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:30.086][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:30.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:30.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:30.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:30.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:30.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:30.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:30.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:30.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:30.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:30.144][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-06-08 16:02:30.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:30.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:30.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:30.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:30.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:30.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:30.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:30.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:30.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:30.178][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-06-08 16:02:30.179][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:30.181][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-06-08 16:02:30.183][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:30.184][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:30.185][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:30.186][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:30.188][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:30.189][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:30.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:30.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:30.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:30.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:30.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:30.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:30.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:30.205][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-06-08 16:02:30.208][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:30.210][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:30.211][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-06-08 16:02:30.580][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-06-08 16:02:30.949][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:30.952][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-06-08 16:02:30.956][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-06-08 16:02:30.960][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-06-08 16:02:30.962][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:30.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:30.965][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:30.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:30.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:30.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:30.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:30.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:30.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:30.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:30.983][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.985][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.987][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:30.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:30.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.994][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:30.995][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:30.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:30.998][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:30.999][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:31.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:31.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.004][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:31.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:31.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.008][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:31.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:31.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.015][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:31.016][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:31.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:31.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.025][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:31.027][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:31.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.029][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:31.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:31.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.036][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:31.037][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:31.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.041][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:31.042][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.046][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:31.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.066][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:31.068][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:31.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.070][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:31.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.077][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:31.078][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:31.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.081][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:31.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:31.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.088][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:31.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:31.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:31.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:31.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.098][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:31.099][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:31.101][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.102][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:31.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:31.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:31.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:31.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:31.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:31.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:31.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:31.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:31.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:31.160][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-06-08 16:02:31.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:31.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:31.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:31.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:31.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:31.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:31.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:31.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:31.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:31.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:31.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:31.190][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-06-08 16:02:31.191][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:31.193][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-06-08 16:02:31.195][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:31.196][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:31.197][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:31.199][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:31.200][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:31.201][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:31.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:31.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:31.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:31.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:31.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:31.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:31.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:31.223][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-06-08 16:02:31.227][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:31.228][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:31.230][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-06-08 16:02:31.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-06-08 16:02:31.968][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:31.971][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-06-08 16:02:31.975][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-06-08 16:02:31.979][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-06-08 16:02:31.981][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:31.982][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:31.984][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:31.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:31.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:31.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:31.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:31.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:31.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:31.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:32.001][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.002][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.011][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:32.012][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:32.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.015][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.016][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:32.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:32.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.021][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:32.023][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:32.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.027][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:32.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:32.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.032][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:32.033][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:32.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:32.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:32.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.042][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:32.043][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:32.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.046][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:32.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:32.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:32.054][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:32.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.058][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:32.059][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.063][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:32.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:32.070][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:32.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:32.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:32.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.079][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:32.080][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:32.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:32.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:32.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.097][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:32.098][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:32.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.101][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:32.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:32.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.108][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:32.109][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:32.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.111][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.113][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:32.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:32.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:32.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:32.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:32.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:32.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:32.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:32.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:32.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:32.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:32.169][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-06-08 16:02:32.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:32.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:32.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:32.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:32.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:32.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:32.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:32.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:32.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:32.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:32.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:32.199][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-06-08 16:02:32.200][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:32.202][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-06-08 16:02:32.203][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:32.205][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:32.206][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:32.207][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:32.209][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:32.210][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:32.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:32.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:32.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:32.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:32.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:32.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:32.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:32.227][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-06-08 16:02:32.235][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:32.237][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:32.239][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-06-08 16:02:32.609][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-06-08 16:02:32.980][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:32.983][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-06-08 16:02:32.987][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-06-08 16:02:32.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-06-08 16:02:32.993][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:32.994][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:32.996][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:32.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:32.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:33.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:33.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:33.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:33.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:33.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:33.013][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.014][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.023][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:33.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:33.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:33.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:33.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.034][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:33.035][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:33.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:33.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:33.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.044][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:33.045][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:33.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:33.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:33.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.054][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:33.056][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:33.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:33.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:33.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.065][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:33.066][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:33.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.070][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:33.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.076][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:33.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:33.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:33.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.085][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:33.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:33.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.092][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:33.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:33.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:33.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:33.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.103][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:33.104][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:33.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.107][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.108][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:33.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:33.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:33.115][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:33.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.126][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.127][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:33.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:33.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:33.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:33.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:33.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:33.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:33.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:33.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:33.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:33.183][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-06-08 16:02:33.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:33.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:33.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:33.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:33.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:33.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:33.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:33.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:33.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:33.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:33.213][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-06-08 16:02:33.214][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:33.216][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-06-08 16:02:33.218][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:33.219][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:33.220][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:33.222][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:33.223][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:33.224][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:33.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:33.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:33.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:33.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:33.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:33.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:33.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:33.241][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-06-08 16:02:33.244][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:33.245][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:33.247][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-06-08 16:02:33.616][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-06-08 16:02:33.985][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:33.987][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-06-08 16:02:33.993][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-06-08 16:02:33.998][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-06-08 16:02:34.006][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:34.011][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:34.012][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:34.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:34.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:34.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:34.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:34.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:34.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:34.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:34.029][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.039][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:34.040][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:34.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.042][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.044][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:34.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:34.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.049][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:34.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:34.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.053][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:34.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:34.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.059][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:34.060][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:34.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:34.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:34.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:34.071][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:34.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:34.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:34.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:34.081][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:34.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.083][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.085][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:34.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:34.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.095][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:34.096][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:34.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:34.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:34.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.105][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:34.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:34.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:34.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:34.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.116][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:34.117][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:34.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.120][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:34.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.126][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:34.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:34.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.130][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.132][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:34.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:34.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:34.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:34.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:34.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:34.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:34.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:34.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:34.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:34.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:34.191][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-06-08 16:02:34.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:34.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:34.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:34.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:34.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:34.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:34.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:34.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:34.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:34.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:34.220][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-06-08 16:02:34.221][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:34.223][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-06-08 16:02:34.225][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:34.226][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:34.227][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:34.229][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:34.230][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:34.231][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:34.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:34.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:34.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:34.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:34.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:34.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:34.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:34.248][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-06-08 16:02:34.251][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:34.252][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:34.254][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-06-08 16:02:34.622][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-06-08 16:02:34.993][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:34.996][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-06-08 16:02:35.000][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-06-08 16:02:35.003][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-06-08 16:02:35.005][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:35.007][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:35.008][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:35.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:35.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:35.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:35.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:35.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:35.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:35.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:35.032][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.034][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.035][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.036][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.043][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:35.044][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:35.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.046][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.048][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:35.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:35.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.053][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:35.054][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:35.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.057][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.058][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:35.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:35.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:35.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:35.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:35.070][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:35.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:35.075][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:35.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.078][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.079][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:35.080][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.083][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.084][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:35.091][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:35.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.093][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:35.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:35.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.100][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:35.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:35.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.104][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.106][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:35.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:35.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.111][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:35.112][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:35.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.114][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.121][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:35.122][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:35.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.124][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:35.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:35.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:35.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:35.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:35.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:35.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:35.181][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-06-08 16:02:35.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:35.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:35.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:35.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:35.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:35.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:35.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:35.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:35.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:35.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:35.210][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-06-08 16:02:35.212][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:35.214][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-06-08 16:02:35.215][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:35.217][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:35.218][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:35.219][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:35.220][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:35.222][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:35.225][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:35.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:35.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:35.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:35.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:35.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:35.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:35.238][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-06-08 16:02:35.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:35.243][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:35.245][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-06-08 16:02:35.612][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-06-08 16:02:35.980][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:35.983][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-06-08 16:02:35.987][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-06-08 16:02:35.990][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-06-08 16:02:35.992][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:35.993][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:35.995][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:35.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:35.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:35.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:36.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:36.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:36.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:36.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:36.011][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.012][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.015][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.021][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:36.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:36.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.026][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:36.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.031][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:36.033][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:36.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:36.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:36.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.049][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:36.050][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:36.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.053][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.054][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:36.055][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:36.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:36.060][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:36.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.064][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:36.065][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.068][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.069][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:36.076][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:36.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.078][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:36.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:36.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.084][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:36.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:36.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:36.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.095][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:36.096][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:36.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.098][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:36.106][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:36.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.108][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:36.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:36.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:36.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:36.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:36.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:36.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:36.159][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-06-08 16:02:36.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:36.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:36.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:36.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:36.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:36.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:36.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:36.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:36.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:36.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:36.192][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-06-08 16:02:36.193][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:36.195][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-06-08 16:02:36.197][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:36.198][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:36.199][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:36.201][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:36.202][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:36.203][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:36.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:36.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:36.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:36.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:36.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:36.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:36.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:36.220][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-06-08 16:02:36.223][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:36.224][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:36.226][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-06-08 16:02:36.595][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-06-08 16:02:36.964][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:36.966][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-06-08 16:02:36.971][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-06-08 16:02:36.974][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-06-08 16:02:36.976][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:36.977][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:36.979][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:36.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:36.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:36.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:36.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:36.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:36.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:36.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:36.995][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:36.997][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:36.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:36.999][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.005][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:37.007][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:37.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.009][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.011][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:37.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:37.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.016][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:37.017][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:37.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:37.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:37.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.026][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:37.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:37.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.029][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:37.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.036][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:37.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:37.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:37.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:37.047][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:37.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.051][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:37.053][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.064][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.070][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:37.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:37.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:37.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:37.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.080][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:37.081][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:37.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:37.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:37.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.090][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:37.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:37.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.096][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.101][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:37.102][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.104][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:37.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:37.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:37.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:37.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:37.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:37.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:37.160][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-06-08 16:02:37.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:37.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:37.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:37.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:37.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:37.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:37.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:37.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:37.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:37.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:37.190][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-06-08 16:02:37.191][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:37.193][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2024-06-08 16:02:37.195][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:37.201][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:37.203][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:37.204][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:37.205][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:37.207][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:37.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:37.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:37.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:37.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:37.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:37.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:37.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:37.223][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-06-08 16:02:37.227][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:37.228][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:37.230][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-06-08 16:02:37.598][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-06-08 16:02:37.968][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:37.970][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-06-08 16:02:37.975][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-06-08 16:02:37.978][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-06-08 16:02:37.980][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:37.982][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:37.983][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:37.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:37.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:37.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:37.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:37.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:37.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:37.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:38.000][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.002][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.011][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:38.012][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:38.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:38.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.021][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:38.023][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:38.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:38.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:38.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.031][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:38.033][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:38.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:38.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:38.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.042][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:38.043][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:38.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:38.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:38.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:38.053][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:38.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.057][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:38.058][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.062][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:38.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.067][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:38.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:38.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.071][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.086][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:38.087][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:38.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.090][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.097][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:38.098][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:38.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.100][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:38.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:38.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.107][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:38.108][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:38.109][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.111][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:38.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:38.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:38.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:38.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.122][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:38.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:38.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:38.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:38.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:38.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:38.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:38.167][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-06-08 16:02:38.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:38.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:38.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:38.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:38.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:38.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:38.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:38.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:38.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:38.194][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:38.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:38.197][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-06-08 16:02:38.198][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:38.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-06-08 16:02:38.202][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:38.203][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:38.205][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:38.206][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:38.207][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:38.208][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:38.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:38.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:38.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:38.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:38.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:38.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:38.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:38.231][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-06-08 16:02:38.234][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:38.235][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:38.237][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-06-08 16:02:38.604][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-06-08 16:02:38.977][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:38.979][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-06-08 16:02:38.984][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-06-08 16:02:38.988][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-06-08 16:02:38.991][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:38.993][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:38.994][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:38.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:38.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:38.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:39.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:39.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:39.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:39.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:39.011][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.015][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.022][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:39.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:39.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.026][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.032][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:39.033][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:39.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.036][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:39.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:39.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.042][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:39.043][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:39.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.046][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:39.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:39.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.052][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:39.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:39.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:39.064][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:39.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.066][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.067][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:39.069][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.071][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:39.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.078][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:39.079][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:39.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.081][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:39.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:39.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.088][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:39.089][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:39.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:39.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:39.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.105][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:39.107][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:39.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.111][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:39.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.116][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:39.117][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:39.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.119][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.121][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:39.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:39.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:39.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:39.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:39.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:39.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:39.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:39.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:39.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:39.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:39.175][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-06-08 16:02:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:39.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:39.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:39.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:39.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:39.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:39.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:39.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:39.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:39.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:39.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:39.204][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-06-08 16:02:39.205][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:39.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-06-08 16:02:39.209][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:39.210][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:39.211][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:39.212][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:39.214][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:39.215][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:39.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:39.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:39.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:39.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:39.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:39.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:39.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:39.231][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-06-08 16:02:39.234][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:39.240][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:39.242][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-06-08 16:02:39.611][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-06-08 16:02:39.982][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:39.985][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-06-08 16:02:39.989][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-06-08 16:02:39.993][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-06-08 16:02:39.995][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:39.996][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:39.997][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:39.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:40.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:40.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:40.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:40.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:40.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:40.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:40.014][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.025][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:40.026][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:40.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:40.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:40.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.035][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:40.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:40.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.041][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:40.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:40.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:40.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:40.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.049][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:40.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:40.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.056][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:40.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:40.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:40.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.066][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:40.068][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:40.069][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.070][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.072][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:40.073][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.077][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:40.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.082][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:40.083][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:40.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.085][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:40.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:40.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.092][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:40.093][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:40.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.097][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:40.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:40.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.102][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:40.104][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:40.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.106][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.108][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:40.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:40.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.120][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:40.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:40.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.124][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.126][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:40.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:40.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:40.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:40.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:40.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:40.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:40.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:40.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:40.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:40.181][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-06-08 16:02:40.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:40.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:40.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:40.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:40.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:40.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:40.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:40.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:40.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:40.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:40.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:40.210][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-06-08 16:02:40.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:40.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-06-08 16:02:40.214][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:40.216][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:40.217][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:40.218][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:40.220][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:40.221][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:40.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:40.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:40.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:40.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:40.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:40.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:40.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:40.237][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-06-08 16:02:40.241][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:40.242][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:40.244][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-06-08 16:02:40.612][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-06-08 16:02:40.987][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:40.990][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-06-08 16:02:41.002][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-06-08 16:02:41.005][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-06-08 16:02:41.008][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:41.009][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:41.011][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:41.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:41.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:41.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:41.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:41.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:41.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:41.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:41.027][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.028][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.030][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.031][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.037][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:41.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:41.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.041][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.043][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:41.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.048][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:41.049][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:41.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.053][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:41.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:41.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.058][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:41.060][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:41.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.062][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:41.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:41.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.069][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:41.070][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:41.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.074][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:41.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:41.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.079][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:41.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:41.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.083][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.084][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:41.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.088][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:41.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.095][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:41.096][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:41.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.098][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:41.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.105][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:41.106][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:41.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:41.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:41.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.115][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:41.117][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:41.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.119][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.120][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:41.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.125][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:41.127][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:41.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.129][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.131][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:41.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:41.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:41.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:41.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:41.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:41.190][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-06-08 16:02:41.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:41.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:41.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:41.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:41.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:41.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:41.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:41.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:41.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:41.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:41.218][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-06-08 16:02:41.220][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:41.222][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-06-08 16:02:41.223][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:41.224][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:41.226][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:41.227][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:41.228][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:41.229][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:41.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:41.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:41.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:41.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:41.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:41.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:41.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:41.246][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-06-08 16:02:41.249][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:41.250][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:41.252][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-06-08 16:02:41.621][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-06-08 16:02:41.989][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:41.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-06-08 16:02:41.996][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-06-08 16:02:41.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-06-08 16:02:42.001][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:42.003][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:42.004][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:42.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:42.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:42.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:42.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:42.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:42.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:42.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:42.028][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.038][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:42.040][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:42.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.042][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.044][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:42.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:42.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.049][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:42.050][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:42.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.054][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:42.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:42.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.059][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:42.061][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:42.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:42.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:42.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.070][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:42.071][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:42.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.075][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:42.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:42.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:42.081][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:42.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.083][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.085][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:42.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:42.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.095][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:42.097][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:42.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:42.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:42.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.106][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:42.107][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:42.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.111][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:42.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:42.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.116][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:42.117][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:42.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.120][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:42.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.126][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:42.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:42.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.130][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.131][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:42.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:42.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:42.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:42.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:42.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:42.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:42.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:42.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:42.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:42.320][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-06-08 16:02:42.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:42.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:42.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:42.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:42.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:42.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:42.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:42.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:42.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:42.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:42.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:42.349][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-06-08 16:02:42.351][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:42.353][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-06-08 16:02:42.354][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:42.355][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:42.357][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:42.358][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:42.359][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:42.360][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:42.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:42.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:42.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:42.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:42.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:42.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:42.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:42.377][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-06-08 16:02:42.381][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:42.382][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:42.384][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-06-08 16:02:42.754][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-06-08 16:02:43.123][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:43.126][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-06-08 16:02:43.131][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-06-08 16:02:43.134][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-06-08 16:02:43.136][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:43.138][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:43.139][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:43.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.155][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.166][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:43.167][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:43.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.169][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.171][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:43.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:43.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.176][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:43.178][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:43.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.180][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.182][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:43.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:43.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:43.189][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:43.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:43.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:43.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:43.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:43.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:43.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:43.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:43.214][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:43.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.219][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:43.220][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.225][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:43.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.231][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:43.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:43.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.236][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:43.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:43.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.244][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:43.246][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:43.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:43.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:43.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.257][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:43.259][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:43.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.262][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.263][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:43.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:43.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.270][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:43.271][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:43.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.274][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:43.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:43.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:43.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:43.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:43.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:43.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:43.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:43.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.343][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-06-08 16:02:43.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.390][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:43.396][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:43.398][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:43.399][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:43.401][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-08 16:02:43.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.817][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:43.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:43.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:43.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:43.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:43.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:43.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:43.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:43.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:43.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:43.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:43.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:44.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:44.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:44.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:44.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:44.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:44.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:44.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:44.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:44.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:44.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:44.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:44.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:44.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:44.096][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:44.100][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:44.102][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:44.104][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:44.475][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:44.844][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:44.847][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-06-08 16:02:44.852][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-06-08 16:02:44.856][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:44.860][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:44.861][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:44.864][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:45.235][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:45.605][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:45.607][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-06-08 16:02:45.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-06-08 16:02:45.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:45.617][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:45.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:45.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:45.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:45.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:45.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:45.629][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-06-08 16:02:45.631][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:45.633][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-06-08 16:02:45.634][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:45.635][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:45.637][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:45.638][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:45.639][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:45.641][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:45.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:45.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:45.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:45.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:45.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:45.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:45.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:45.657][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-06-08 16:02:45.661][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:45.662][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:45.664][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-06-08 16:02:46.034][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-06-08 16:02:46.407][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:46.409][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-06-08 16:02:46.414][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-06-08 16:02:46.417][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-06-08 16:02:46.419][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:46.421][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:46.422][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:46.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:46.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:46.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:46.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:46.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:46.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:46.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:46.439][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.440][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.442][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.449][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:46.450][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:46.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.453][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:46.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.459][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:46.461][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:46.462][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.463][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.470][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:46.472][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:46.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.474][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:46.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:46.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.481][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:46.482][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:46.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.484][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.491][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:46.492][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:46.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.494][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.496][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:46.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.501][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:46.502][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:46.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.505][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.506][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:46.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:46.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.511][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.522][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:46.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:46.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:46.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:46.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.532][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:46.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:46.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.537][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:46.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:46.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.542][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:46.543][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:46.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:46.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:46.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:46.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:46.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:46.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:46.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:46.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:46.613][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-06-08 16:02:46.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:46.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:46.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:46.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:46.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:46.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:46.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:46.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:46.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:46.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:46.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:46.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:46.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:46.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:46.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:46.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:46.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:46.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:46.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:46.668][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-06-08 16:02:46.669][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:46.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-06-08 16:02:46.672][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:46.673][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:46.675][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:46.676][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:46.677][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:46.678][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:46.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:46.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:46.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:46.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:46.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:46.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:46.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:46.694][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-06-08 16:02:46.697][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:46.698][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:46.700][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-06-08 16:02:47.073][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-06-08 16:02:47.441][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:47.444][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-06-08 16:02:47.448][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-06-08 16:02:47.451][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-06-08 16:02:47.453][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:47.454][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:47.456][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:47.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.471][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.473][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.481][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:47.483][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:47.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.485][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.486][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:47.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:47.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.491][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:47.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:47.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.495][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:47.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:47.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.501][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:47.503][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:47.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.505][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:47.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:47.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.511][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:47.513][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:47.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:47.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:47.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.521][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:47.523][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:47.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.527][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:47.528][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:47.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.530][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.532][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:47.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.537][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.538][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.540][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.546][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:47.548][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:47.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.550][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:47.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.557][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:47.558][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:47.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.560][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.562][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:47.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:47.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:47.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:47.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.570][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:47.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:47.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:47.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:47.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:47.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:47.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:47.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:47.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.626][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-06-08 16:02:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.665][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:47.669][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:47.670][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:47.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:47.674][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-08 16:02:47.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.909][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:47.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:47.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:47.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:47.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:47.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:47.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:47.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:47.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:47.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:47.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:47.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.027][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.247][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.296][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:48.300][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:48.302][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-06-08 16:02:48.304][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:48.305][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-06-08 16:02:48.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:48.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:48.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:48.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:48.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:48.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:48.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:48.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:48.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:48.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.919][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:02:48.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:02:48.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:02:48.934][biodb::testThat]
biodb.INFO [2024-06-08 16:02:48.936][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-06-08 16:02:48.937][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:02:48.938][biodb::testThat]
biodb.TRACE[2024-06-08 16:02:48.941][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:02:48.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:02:48.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.946][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:02:48.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:02:48.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.951][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:02:48.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:02:48.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:48.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:48.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:48.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:49.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:49.037][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:49.041][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:49.043][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:02:49.044][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:49.046][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:02:49.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:49.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:49.077][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:49.081][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:02:49.082][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:02:49.084][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:02:49.086][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:02:49.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:49.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:49.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:49.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:49.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:49.147][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:02:49.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:49.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.172][private$selectFields]
biodb.TRACE[2024-06-08 16:02:49.173][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:02:49.174][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:02:49.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.180][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.187][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:02:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.221][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-08 16:02:49.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:49.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.245][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.246][private$selectFields]
biodb.TRACE[2024-06-08 16:02:49.247][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:02:49.248][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:02:49.249][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.257][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.260][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.261][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.267][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:02:49.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.284][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:02:49.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:49.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.308][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.309][private$selectFields]
biodb.TRACE[2024-06-08 16:02:49.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:02:49.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:02:49.312][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.317][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.320][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.324][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:49.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.330][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:02:49.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:49.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:49.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:49.346][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-08 16:02:49.347][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:02:49.349][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:02:49.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:49.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:49.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:49.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:49.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:49.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:49.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:49.367][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:49.371][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:49.372][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:49.374][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:49.745][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:50.116][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:50.119][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content"
biodb.TRACE[2024-06-08 16:02:50.124][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.request"
biodb.DEBUG[2024-06-08 16:02:50.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:50.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:50.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:50.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:50.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:50.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:50.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:50.175][private$loadEntries] Creating entries from ids [1]: "113227".
biodb.DEBUG[2024-06-08 16:02:50.177][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:50.179][cch$loadFileContent] Trying to load 1 files from cache: [1]: "113227".
biodb.TRACE[2024-06-08 16:02:50.180][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:50.181][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:50.183][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:50.184][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:50.185][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:50.186][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:50.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:50.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:50.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:50.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:50.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:50.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:50.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:50.203][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.DEBUG[2024-06-08 16:02:50.206][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:50.207][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:50.209][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227".
biodb.TRACE[2024-06-08 16:02:50.615][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=113227).
biodb.DEBUG[2024-06-08 16:02:51.037][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:51.039][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.content"
biodb.TRACE[2024-06-08 16:02:51.045][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ed496dac459a2ba62e671edbcae22326.request"
biodb.TRACE[2024-06-08 16:02:51.048][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/113227.xml"
biodb.DEBUG[2024-06-08 16:02:51.051][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:51.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:51.054][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:51.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:51.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:51.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:51.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:51.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:51.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:51.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:51.071][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.082][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:51.084][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:51.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.087][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.089][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:51.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:51.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.094][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:51.096][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:51.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.101][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:51.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:51.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:51.107][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:51.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.110][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:51.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:51.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:51.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:51.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.130][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:51.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:51.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.137][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:51.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:51.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.141][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.142][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:51.143][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.146][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.148][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:51.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:51.155][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:51.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:51.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:51.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.188][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:51.190][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:51.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:51.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:51.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.205][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:51.206][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:51.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.215][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:51.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:51.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.220][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:51.222][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:51.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.224][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.226][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:51.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:51.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:51.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:51.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:51.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:51.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:51.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:51.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:51.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:51.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:51.280][self$createEntryFromContent] Accession numbers: 113227.
biodb.TRACE[2024-06-08 16:02:51.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:51.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:51.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:51.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:51.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:51.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:51.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:51.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:51.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:51.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:51.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:51.310][private$loadEntries] Creating entries from ids [1]: "169712".
biodb.DEBUG[2024-06-08 16:02:51.311][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:51.313][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169712".
biodb.TRACE[2024-06-08 16:02:51.315][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:51.316][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:51.318][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:51.319][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:51.320][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:51.321][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:51.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:51.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:51.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:51.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:51.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:51.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:51.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:51.338][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.DEBUG[2024-06-08 16:02:51.342][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:51.343][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:51.345][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712".
biodb.TRACE[2024-06-08 16:02:51.781][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169712).
biodb.DEBUG[2024-06-08 16:02:52.213][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:52.215][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.content"
biodb.TRACE[2024-06-08 16:02:52.220][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6e52d7b9d801aec68d97cc03bd4acc90.request"
biodb.TRACE[2024-06-08 16:02:52.223][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169712.xml"
biodb.DEBUG[2024-06-08 16:02:52.225][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:52.227][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:52.228][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:52.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:52.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:52.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:52.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:52.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:52.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:52.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:52.245][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.255][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:52.256][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:52.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.260][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:52.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:52.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.265][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:52.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:52.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.269][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.271][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:52.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:52.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.276][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:52.277][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:52.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.280][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:52.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:52.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.286][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:52.288][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:52.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.290][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:52.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:52.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.297][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:52.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:52.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.302][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:52.303][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.307][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:52.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.312][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:52.314][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:52.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.316][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:52.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:52.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.323][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:52.324][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:52.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.326][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:52.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:52.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.333][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:52.335][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:52.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.339][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:52.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:52.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:52.345][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:52.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.347][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.349][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:52.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:52.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:52.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:52.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:52.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:52.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:52.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:52.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:52.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:52.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:52.405][self$createEntryFromContent] Accession numbers: 169712.
biodb.TRACE[2024-06-08 16:02:52.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:52.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:52.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:52.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:52.422][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:52.426][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:52.428][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:52.430][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:52.869][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:53.305][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:53.308][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content"
biodb.TRACE[2024-06-08 16:02:53.313][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.request"
biodb.DEBUG[2024-06-08 16:02:53.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:53.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:53.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:53.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:53.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:53.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:53.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:53.330][private$loadEntries] Creating entries from ids [1]: "4781".
biodb.DEBUG[2024-06-08 16:02:53.332][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:53.334][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4781".
biodb.TRACE[2024-06-08 16:02:53.346][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:53.347][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:53.348][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:53.350][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:53.351][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:53.352][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:53.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:53.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:53.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:53.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:53.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:53.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:53.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:53.369][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.DEBUG[2024-06-08 16:02:53.373][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:53.374][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:53.376][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781".
biodb.TRACE[2024-06-08 16:02:53.811][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4781).
biodb.DEBUG[2024-06-08 16:02:54.353][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:54.356][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.content"
biodb.TRACE[2024-06-08 16:02:54.360][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e4869054c906476bc1e4ece10c7e53cc.request"
biodb.TRACE[2024-06-08 16:02:54.363][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4781.xml"
biodb.DEBUG[2024-06-08 16:02:54.365][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:54.367][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:54.368][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:54.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:54.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:54.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:54.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:54.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:54.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:54.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:54.384][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.386][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.388][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.394][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:54.396][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:54.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.399][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:54.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:54.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.404][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:54.406][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:54.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:54.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:54.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.414][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:54.416][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:54.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.418][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:54.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:54.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.424][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:54.426][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:54.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.428][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:54.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:54.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.434][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:54.436][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:54.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.438][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.439][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:54.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:54.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.444][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:54.446][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.447][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.448][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.449][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:54.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:54.456][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:54.457][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.458][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:54.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.464][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:54.466][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:54.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.468][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:54.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:54.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.475][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:54.477][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:54.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:54.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:54.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.486][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:54.487][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:54.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.491][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:54.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:54.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:54.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:54.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:54.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:54.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:54.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:54.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:54.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:54.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:54.546][self$createEntryFromContent] Accession numbers: 4781.
biodb.TRACE[2024-06-08 16:02:54.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:54.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:54.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:54.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:54.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:54.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:54.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:54.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:54.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:54.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:54.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:54.575][private$loadEntries] Creating entries from ids [1]: "16587".
biodb.DEBUG[2024-06-08 16:02:54.576][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:54.578][cch$loadFileContent] Trying to load 1 files from cache: [1]: "16587".
biodb.TRACE[2024-06-08 16:02:54.580][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:54.581][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:54.583][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:54.584][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:54.585][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:54.586][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:54.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:54.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:54.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:54.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:54.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:54.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:54.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:54.603][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.DEBUG[2024-06-08 16:02:54.606][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:54.608][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:54.610][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587".
biodb.TRACE[2024-06-08 16:02:55.033][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=16587).
biodb.DEBUG[2024-06-08 16:02:55.468][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:55.470][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.content"
biodb.TRACE[2024-06-08 16:02:55.475][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6012905c0932919c069ecb5afc0b487b.request"
biodb.TRACE[2024-06-08 16:02:55.479][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/16587.xml"
biodb.DEBUG[2024-06-08 16:02:55.481][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:55.482][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:55.484][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:55.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:55.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:55.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:55.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:55.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:55.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:55.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:55.500][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.504][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.511][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:55.512][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:55.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.516][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:55.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:55.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.521][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:55.523][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:55.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.527][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:55.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:55.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:55.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:55.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.535][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:55.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:55.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.542][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:55.543][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:55.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:55.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:55.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.552][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:55.553][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:55.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.557][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:55.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:55.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.561][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:55.563][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.566][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:55.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.571][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:55.573][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:55.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.575][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:55.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:55.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.581][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:55.583][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:55.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.585][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:55.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:55.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.592][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:55.593][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:55.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.597][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:55.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:55.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:55.613][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:55.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.615][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.617][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:55.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:55.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:55.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:55.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:55.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:55.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:55.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:55.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:55.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:55.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:55.670][self$createEntryFromContent] Accession numbers: 16587.
biodb.TRACE[2024-06-08 16:02:55.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:55.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:55.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:55.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:55.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:55.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:55.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:55.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:55.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:55.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:55.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:55.699][private$loadEntries] Creating entries from ids [1]: "19804".
biodb.DEBUG[2024-06-08 16:02:55.700][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:55.702][cch$loadFileContent] Trying to load 1 files from cache: [1]: "19804".
biodb.TRACE[2024-06-08 16:02:55.704][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:55.705][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:55.706][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:55.708][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:55.709][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:55.710][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:55.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:55.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:55.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:55.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:55.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:55.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:55.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:55.726][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.DEBUG[2024-06-08 16:02:55.729][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:55.731][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:55.732][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804".
biodb.TRACE[2024-06-08 16:02:56.170][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=19804).
biodb.DEBUG[2024-06-08 16:02:56.607][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:56.609][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.content"
biodb.TRACE[2024-06-08 16:02:56.614][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef7e014212775cbaa9299e60f32b2bcd.request"
biodb.TRACE[2024-06-08 16:02:56.617][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19804.xml"
biodb.DEBUG[2024-06-08 16:02:56.619][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:56.621][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:56.622][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:56.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:56.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:56.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:56.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:56.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:56.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:56.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:56.638][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.639][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.648][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:56.650][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:56.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.652][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.655][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:56.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:56.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.660][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:56.661][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:56.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.663][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:56.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:56.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.670][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:56.671][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:56.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.674][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.675][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.680][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:56.682][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:56.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.684][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:56.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:56.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.690][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:56.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:56.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.694][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.695][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:56.697][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.699][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.701][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:56.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:56.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:56.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.709][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:56.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:56.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.716][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:56.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:56.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.719][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.721][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:56.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:56.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.726][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:56.727][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:56.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.731][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:56.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:56.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.736][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:56.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:56.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.740][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.741][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:56.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:56.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:56.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:56.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:56.794][self$createEntryFromContent] Accession numbers: 19804.
biodb.TRACE[2024-06-08 16:02:56.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:56.842][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:02:56.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:56.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:56.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:56.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:56.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:56.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:56.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:56.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.906][private$selectFields]
biodb.TRACE[2024-06-08 16:02:56.907][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:02:56.908][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:02:56.909][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.913][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.914][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.915][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.917][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.919][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.921][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.926][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.927][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:02:56.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.943][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:02:56.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:56.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:56.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:56.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:56.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:56.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:56.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:56.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.968][private$selectFields]
biodb.TRACE[2024-06-08 16:02:56.970][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:02:56.971][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:02:56.972][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.977][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.981][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.983][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.984][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:56.985][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.990][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:02:56.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:56.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:56.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:56.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.006][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:02:57.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:57.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:57.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:57.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:57.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:57.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:57.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:57.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:57.031][private$selectFields]
biodb.TRACE[2024-06-08 16:02:57.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:02:57.034][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:02:57.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:57.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:57.047][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:02:57.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.053][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:02:57.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:57.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:57.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:57.070][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:02:57.071][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:02:57.072][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:02:57.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:57.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:57.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:57.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:57.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:57.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:57.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:57.090][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:02:57.094][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:57.095][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:57.098][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:02:57.515][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:02:57.907][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:57.910][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content"
biodb.TRACE[2024-06-08 16:02:57.915][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.request"
biodb.DEBUG[2024-06-08 16:02:57.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:57.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:57.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:57.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:57.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:57.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:57.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:57.932][private$loadEntries] Creating entries from ids [1]: "159630".
biodb.DEBUG[2024-06-08 16:02:57.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:57.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "159630".
biodb.TRACE[2024-06-08 16:02:57.936][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:57.938][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:57.939][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:57.941][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:57.942][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:57.943][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:57.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:57.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:57.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:57.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:57.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:57.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:57.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:57.959][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.DEBUG[2024-06-08 16:02:57.963][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:57.964][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:57.966][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630".
biodb.TRACE[2024-06-08 16:02:58.400][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=159630).
biodb.DEBUG[2024-06-08 16:02:58.788][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:58.791][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.content"
biodb.TRACE[2024-06-08 16:02:58.796][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f9497c6792bdb2528746e6a81b02589e.request"
biodb.TRACE[2024-06-08 16:02:58.800][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/159630.xml"
biodb.DEBUG[2024-06-08 16:02:58.802][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:58.804][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:58.805][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:58.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:58.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:58.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:58.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:58.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:58.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:58.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:58.822][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.823][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.826][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.832][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:58.833][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:58.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.836][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.837][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:58.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:58.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.842][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:58.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:58.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.846][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.848][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:58.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:58.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.853][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:58.854][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:58.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:58.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:58.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:58.864][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:58.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:58.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:58.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.873][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:58.875][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:58.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.877][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.878][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:58.880][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:58.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.883][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:58.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:58.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.888][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:58.890][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:58.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:58.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:58.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.899][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:58.900][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:58.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.902][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:58.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.909][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:58.910][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:58.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.914][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:58.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:58.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.919][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:58.921][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:58.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.925][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:58.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:58.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:58.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:58.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:58.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:58.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:58.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:58.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:58.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:58.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:58.991][self$createEntryFromContent] Accession numbers: 159630.
biodb.TRACE[2024-06-08 16:02:58.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:58.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:58.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:58.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:58.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:58.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:59.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:59.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:59.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:59.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:59.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:59.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:59.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:59.020][private$loadEntries] Creating entries from ids [1]: "160202".
biodb.DEBUG[2024-06-08 16:02:59.021][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:02:59.023][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160202".
biodb.TRACE[2024-06-08 16:02:59.025][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:02:59.026][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:02:59.027][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:02:59.029][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:02:59.030][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:02:59.031][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:02:59.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:59.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:59.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:59.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:59.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:59.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:59.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:02:59.048][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.DEBUG[2024-06-08 16:02:59.051][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:02:59.052][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:02:59.054][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202".
biodb.TRACE[2024-06-08 16:02:59.424][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160202).
biodb.DEBUG[2024-06-08 16:02:59.795][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:02:59.798][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.content"
biodb.TRACE[2024-06-08 16:02:59.802][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1de9586ccaafdf8e637928dc3e313d63.request"
biodb.TRACE[2024-06-08 16:02:59.806][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160202.xml"
biodb.DEBUG[2024-06-08 16:02:59.808][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:02:59.809][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:02:59.811][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:02:59.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:02:59.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:02:59.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:02:59.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:02:59.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:02:59.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:02:59.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:02:59.827][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.828][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.837][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:59.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:59.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:02:59.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:02:59.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.847][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:59.848][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:59.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:02:59.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:02:59.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.857][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:59.858][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:59.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:02:59.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:02:59.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:59.869][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:59.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:02:59.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:02:59.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.878][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:59.879][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:02:59.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.883][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:59.884][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.888][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:02:59.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.893][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:59.895][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:59.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.897][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:59.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:02:59.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.904][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:59.905][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:59.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.907][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.909][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:02:59.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:02:59.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.914][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:59.915][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:59.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.919][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:02:59.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:02:59.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.924][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:59.926][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:59.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:02:59.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:02:59.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:59.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:59.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:59.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:59.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:02:59.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:02:59.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:02:59.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:02:59.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:02:59.985][self$createEntryFromContent] Accession numbers: 160202.
biodb.TRACE[2024-06-08 16:02:59.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:02:59.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:02:59.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:02:59.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:00.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:00.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:00.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:00.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:00.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:00.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:00.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:00.015][private$loadEntries] Creating entries from ids [1]: "160393".
biodb.DEBUG[2024-06-08 16:03:00.016][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:00.018][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160393".
biodb.TRACE[2024-06-08 16:03:00.019][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:00.021][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:00.022][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:00.023][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:00.024][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:00.026][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:00.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:00.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:00.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:00.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:00.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:00.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:00.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:00.042][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.DEBUG[2024-06-08 16:03:00.046][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:00.047][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:00.049][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393".
biodb.TRACE[2024-06-08 16:03:00.418][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160393).
biodb.DEBUG[2024-06-08 16:03:00.788][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:00.791][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.content"
biodb.TRACE[2024-06-08 16:03:00.795][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e0266c32050b31cda3d5e01c2d907fcd.request"
biodb.TRACE[2024-06-08 16:03:00.799][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160393.xml"
biodb.DEBUG[2024-06-08 16:03:00.801][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:00.802][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:00.803][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:00.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:00.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:00.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:00.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:00.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:00.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:00.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:00.820][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.821][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.823][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.830][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:00.831][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:00.832][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.835][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:00.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:00.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.840][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:00.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:00.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:00.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:00.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.851][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:00.852][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:00.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:00.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:00.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:00.872][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:00.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.875][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:00.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:00.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:00.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:00.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.885][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.886][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:00.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:00.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.890][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:00.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:00.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:00.898][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:00.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.900][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:00.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:00.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.907][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:00.908][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:00.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.910][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.912][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:00.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:00.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.917][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:00.918][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:00.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.920][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.922][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:00.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:00.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.927][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:00.928][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:00.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.931][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.932][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:00.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:00.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:00.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:00.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:00.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:00.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:00.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:00.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:00.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:00.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:00.987][self$createEntryFromContent] Accession numbers: 160393.
biodb.TRACE[2024-06-08 16:03:00.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:00.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:00.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:00.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:00.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:00.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:00.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:01.003][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:01.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:01.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:01.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:01.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:01.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:01.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:01.016][private$loadEntries] Creating entries from ids [1]: "160991".
biodb.DEBUG[2024-06-08 16:03:01.018][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:01.020][cch$loadFileContent] Trying to load 1 files from cache: [1]: "160991".
biodb.TRACE[2024-06-08 16:03:01.021][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:01.023][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:01.024][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:01.025][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:01.027][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:01.028][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:01.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:01.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:01.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:01.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:01.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:01.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:01.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:01.046][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.DEBUG[2024-06-08 16:03:01.050][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:01.051][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:01.053][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991".
biodb.TRACE[2024-06-08 16:03:01.422][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=160991).
biodb.DEBUG[2024-06-08 16:03:01.793][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:01.796][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.content"
biodb.TRACE[2024-06-08 16:03:01.800][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6bad8d3e957240d90a71edc1329f8f37.request"
biodb.TRACE[2024-06-08 16:03:01.804][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/160991.xml"
biodb.DEBUG[2024-06-08 16:03:01.806][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:01.807][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:01.809][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:01.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:01.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:01.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:01.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:01.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:01.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:01.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:01.826][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.836][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:01.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:01.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:01.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:01.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.847][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:01.848][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:01.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.853][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:01.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:01.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.858][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:01.860][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:01.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:01.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:01.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.869][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:01.870][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:01.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.873][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.875][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:01.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:01.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.880][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:01.881][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:01.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.884][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.885][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:01.887][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.889][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:01.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:01.898][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:01.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.900][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:01.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:01.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:01.909][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:01.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.911][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:01.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:01.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.918][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:01.919][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:01.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.922][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.923][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:01.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:01.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.928][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:01.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:01.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:01.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:01.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:01.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:01.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:01.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:01.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:01.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:01.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:01.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:01.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:01.989][self$createEntryFromContent] Accession numbers: 160991.
biodb.TRACE[2024-06-08 16:03:01.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:01.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:01.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:01.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:02.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:02.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:02.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:02.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:02.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:02.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:02.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:02.018][private$loadEntries] Creating entries from ids [1]: "164975".
biodb.DEBUG[2024-06-08 16:03:02.020][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:02.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164975".
biodb.TRACE[2024-06-08 16:03:02.023][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:02.024][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:02.026][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:02.027][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:02.028][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:02.030][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:02.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:02.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:02.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:02.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:02.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:02.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:02.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:02.054][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.DEBUG[2024-06-08 16:03:02.057][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:02.058][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:02.060][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975".
biodb.TRACE[2024-06-08 16:03:02.429][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164975).
biodb.DEBUG[2024-06-08 16:03:02.798][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:02.801][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.content"
biodb.TRACE[2024-06-08 16:03:02.805][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b1cbfaf7aef2d62dc8db3306c1521943.request"
biodb.TRACE[2024-06-08 16:03:02.808][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164975.xml"
biodb.DEBUG[2024-06-08 16:03:02.810][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:02.812][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:02.813][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:02.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:02.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:02.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:02.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:02.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:02.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:02.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:02.830][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.831][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.840][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:02.842][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:02.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.846][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:02.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:02.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.851][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:02.852][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:02.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:02.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:02.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.861][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:02.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:02.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.865][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:02.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:02.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.872][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:02.873][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:02.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.875][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:02.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:02.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.882][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:02.883][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:02.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.886][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.887][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:02.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.893][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:02.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.898][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:02.899][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:02.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:02.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:02.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:02.909][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:02.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.912][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:02.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:02.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.919][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:02.921][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:02.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.925][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:02.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:02.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.930][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:02.932][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:02.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.934][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.936][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:02.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:02.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:02.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:02.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:02.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:02.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:02.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:02.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:02.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:02.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:02.991][self$createEntryFromContent] Accession numbers: 164975.
biodb.TRACE[2024-06-08 16:03:02.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:02.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:02.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:02.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:03.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:03.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:03.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:03.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:03.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:03.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:03.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:03.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:03.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:03.020][private$loadEntries] Creating entries from ids [1]: "164994".
biodb.DEBUG[2024-06-08 16:03:03.021][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:03.023][cch$loadFileContent] Trying to load 1 files from cache: [1]: "164994".
biodb.TRACE[2024-06-08 16:03:03.025][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:03.026][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:03.027][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:03.029][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:03.030][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:03.031][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:03.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:03.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:03.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:03.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:03.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:03.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:03.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:03.048][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.DEBUG[2024-06-08 16:03:03.051][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:03.052][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:03.054][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994".
biodb.TRACE[2024-06-08 16:03:03.423][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=164994).
biodb.DEBUG[2024-06-08 16:03:03.794][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:03.797][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.content"
biodb.TRACE[2024-06-08 16:03:03.861][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c2789f33696a1a62a1d6cd81e3041cd1.request"
biodb.TRACE[2024-06-08 16:03:03.865][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/164994.xml"
biodb.DEBUG[2024-06-08 16:03:03.867][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:03.868][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:03.870][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:03.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:03.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:03.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:03.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:03.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:03.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:03.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:03.886][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:03.887][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:03.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.889][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:03.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:03.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.896][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:03.897][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:03.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.899][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.901][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:03.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:03.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.906][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:03.907][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:03.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.909][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.911][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:03.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:03.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.916][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:03.917][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:03.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.920][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:03.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:03.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.926][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:03.927][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:03.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.930][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:03.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:03.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:03.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:03.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.940][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.941][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:03.942][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:03.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.945][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.946][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:03.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:03.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:03.953][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:03.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.955][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:03.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:03.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.961][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:03.963][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:03.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.965][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:03.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:03.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.972][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:03.973][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:03.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.977][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:03.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:03.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.982][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:03.983][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:03.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.985][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.987][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:03.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:03.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:03.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:03.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:03.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:03.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:03.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:04.052][self$createEntryFromContent] Accession numbers: 164994.
biodb.TRACE[2024-06-08 16:03:04.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:04.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:04.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:04.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:04.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:04.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:04.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:04.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:04.082][private$loadEntries] Creating entries from ids [1]: "169251".
biodb.DEBUG[2024-06-08 16:03:04.083][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:04.085][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169251".
biodb.TRACE[2024-06-08 16:03:04.086][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:04.088][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:04.089][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:04.090][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:04.092][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:04.093][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:04.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:04.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:04.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:04.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:04.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:04.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:04.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:04.109][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.DEBUG[2024-06-08 16:03:04.113][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:04.114][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:04.116][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251".
biodb.TRACE[2024-06-08 16:03:04.485][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169251).
biodb.DEBUG[2024-06-08 16:03:04.853][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:04.855][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.content"
biodb.TRACE[2024-06-08 16:03:04.859][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/06c85ce8d5c9a410c27ad425a575abe7.request"
biodb.TRACE[2024-06-08 16:03:04.862][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169251.xml"
biodb.DEBUG[2024-06-08 16:03:04.864][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:04.866][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:04.867][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:04.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:04.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:04.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:04.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:04.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:04.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:04.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:04.883][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:04.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:04.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.893][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:04.894][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:04.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.897][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.898][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:04.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:04.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.903][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:04.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:04.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.907][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:04.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:04.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:04.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:04.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.919][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:04.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:04.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.924][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:04.925][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:04.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:04.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:04.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.934][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:04.935][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:04.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.939][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:04.941][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.943][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.944][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:04.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:04.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.949][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:04.951][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:04.952][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.953][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:04.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:04.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.960][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:04.961][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:04.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.963][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.965][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:04.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:04.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.970][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:04.971][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:04.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.974][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.975][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:04.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:04.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.980][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:04.981][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:04.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.984][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.985][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:04.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:04.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:04.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:04.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:04.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:05.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:05.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:05.041][self$createEntryFromContent] Accession numbers: 169251.
biodb.TRACE[2024-06-08 16:03:05.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:05.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:05.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:05.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:05.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:05.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:05.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:05.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:05.070][private$loadEntries] Creating entries from ids [1]: "224261".
biodb.DEBUG[2024-06-08 16:03:05.072][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:05.074][cch$loadFileContent] Trying to load 1 files from cache: [1]: "224261".
biodb.TRACE[2024-06-08 16:03:05.077][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:05.078][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:05.080][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:05.082][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:05.083][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:05.084][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:05.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:05.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:05.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:05.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:05.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:05.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:05.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:05.101][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.DEBUG[2024-06-08 16:03:05.105][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:05.106][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:05.108][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261".
biodb.TRACE[2024-06-08 16:03:05.476][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=224261).
biodb.DEBUG[2024-06-08 16:03:05.843][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:05.846][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.content"
biodb.TRACE[2024-06-08 16:03:05.850][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7ba99c29fa5d3888a543698650c3997e.request"
biodb.TRACE[2024-06-08 16:03:05.854][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/224261.xml"
biodb.DEBUG[2024-06-08 16:03:05.856][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:05.857][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:05.859][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:05.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:05.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:05.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:05.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:05.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:05.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:05.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:05.875][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.877][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.879][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:05.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:05.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.886][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:05.887][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:05.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.889][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.891][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:05.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:05.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.896][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:05.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:05.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.900][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:05.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:05.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.907][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:05.909][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:05.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.922][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:05.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:05.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.929][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:05.930][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:05.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.933][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:05.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:05.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.939][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:05.941][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:05.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.943][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.944][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:05.946][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.950][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:05.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:05.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.955][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:05.956][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:05.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:05.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:05.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.965][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:05.967][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:05.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.971][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:05.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:05.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.976][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:05.978][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:05.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:05.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:05.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.986][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:05.988][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:05.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.990][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.992][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:05.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:05.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:05.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:05.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:05.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:05.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:06.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:06.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:06.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:06.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:06.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:06.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:06.046][self$createEntryFromContent] Accession numbers: 224261.
biodb.TRACE[2024-06-08 16:03:06.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:06.063][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:06.067][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:06.068][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:06.071][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:06.443][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:06.812][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:06.814][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content"
biodb.TRACE[2024-06-08 16:03:06.819][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.request"
biodb.DEBUG[2024-06-08 16:03:06.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:06.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:06.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:06.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:06.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:06.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:06.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:06.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:06.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:06.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:06.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:06.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:06.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:06.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:06.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:06.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:06.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:06.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:06.863][private$loadEntries] Creating entries from ids [1]: "71954".
biodb.DEBUG[2024-06-08 16:03:06.864][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:06.866][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71954".
biodb.TRACE[2024-06-08 16:03:06.868][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:06.869][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:06.870][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:06.872][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:06.873][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:06.874][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:06.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:06.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:06.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:06.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:06.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:06.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:06.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:06.891][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.DEBUG[2024-06-08 16:03:06.894][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:06.896][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:06.897][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954".
biodb.TRACE[2024-06-08 16:03:07.266][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71954).
biodb.DEBUG[2024-06-08 16:03:07.637][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:07.639][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.content"
biodb.TRACE[2024-06-08 16:03:07.644][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58f24f0de3d9b6c69a2b349522c5c9b3.request"
biodb.TRACE[2024-06-08 16:03:07.647][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71954.xml"
biodb.DEBUG[2024-06-08 16:03:07.649][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:07.650][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:07.652][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:07.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:07.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:07.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:07.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:07.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:07.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:07.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:07.668][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.670][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.679][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:07.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:07.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.682][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.684][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:07.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:07.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.689][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:07.690][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:07.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.692][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:07.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:07.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.699][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:07.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:07.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.703][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.704][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:07.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:07.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:07.711][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:07.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.713][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:07.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:07.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.720][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:07.721][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:07.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.723][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.725][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:07.726][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.728][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.730][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:07.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.735][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:07.736][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:07.738][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.739][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:07.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:07.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.745][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:07.747][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:07.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.749][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:07.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:07.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.756][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:07.757][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:07.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.759][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:07.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:07.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.766][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:07.767][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:07.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.770][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:07.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:07.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:07.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:07.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:07.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:07.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:07.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:07.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:07.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:07.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:07.836][self$createEntryFromContent] Accession numbers: 71954.
biodb.TRACE[2024-06-08 16:03:07.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:07.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:07.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:07.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:07.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:07.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:07.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:07.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:07.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:07.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:07.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:07.868][private$loadEntries] Creating entries from ids [1]: "197612".
biodb.DEBUG[2024-06-08 16:03:07.869][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:07.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "197612".
biodb.TRACE[2024-06-08 16:03:07.872][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:07.874][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:07.875][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:07.876][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:07.877][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:07.878][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:07.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:07.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:07.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:07.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:07.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:07.892][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:07.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:07.895][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.DEBUG[2024-06-08 16:03:07.898][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:07.899][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:07.901][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612".
biodb.TRACE[2024-06-08 16:03:08.272][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=197612).
biodb.DEBUG[2024-06-08 16:03:08.643][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:08.645][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.content"
biodb.TRACE[2024-06-08 16:03:08.650][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d602b140c80212c04a1a2ba98ef7dc4f.request"
biodb.TRACE[2024-06-08 16:03:08.653][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/197612.xml"
biodb.DEBUG[2024-06-08 16:03:08.654][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:08.656][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:08.657][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:08.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:08.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:08.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:08.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:08.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:08.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:08.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:08.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.683][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:08.684][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:08.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.688][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.693][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:08.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:08.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.696][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:08.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:08.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.703][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:08.704][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:08.705][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.707][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:08.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.714][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:08.715][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:08.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.717][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:08.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:08.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.724][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:08.725][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:08.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.727][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.729][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:08.730][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.733][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.734][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:08.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.739][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:08.741][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:08.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.743][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:08.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.749][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:08.751][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:08.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:08.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:08.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.760][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:08.761][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:08.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:08.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:08.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.770][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:08.771][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:08.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.773][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.775][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:08.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:08.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:08.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:08.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:08.830][self$createEntryFromContent] Accession numbers: 197612.
biodb.TRACE[2024-06-08 16:03:08.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:08.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:08.846][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:08.848][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:08.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:08.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:08.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:08.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:08.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:08.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:08.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.872][private$selectFields]
biodb.TRACE[2024-06-08 16:03:08.873][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:08.875][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:08.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.882][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.883][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.886][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.887][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.888][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.889][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.890][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.893][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.894][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:08.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.910][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:03:08.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:08.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:08.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:08.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:08.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:08.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:08.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:08.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.935][private$selectFields]
biodb.TRACE[2024-06-08 16:03:08.936][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:08.937][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:08.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.943][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.944][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.949][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.950][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:08.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.955][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.956][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:08.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-06-08 16:03:08.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:08.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:08.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:08.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:08.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:08.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:08.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:08.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:08.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:08.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:08.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:09.005][private$selectFields]
biodb.TRACE[2024-06-08 16:03:09.006][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:09.007][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:09.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:09.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.013][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.015][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:09.020][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:09.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.026][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:09.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:09.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.042][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-06-08 16:03:09.043][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:09.044][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:03:09.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:09.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:09.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:09.184][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:09.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:09.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:09.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:09.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:09.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:09.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:09.199][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:09.203][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:09.204][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:09.207][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:09.578][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:09.945][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:09.948][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-06-08 16:03:09.953][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-06-08 16:03:09.957][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:09.961][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:09.963][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:09.965][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:10.340][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:10.711][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:10.713][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-06-08 16:03:10.720][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-06-08 16:03:10.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:10.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:10.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:10.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:10.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:10.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:10.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:10.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:10.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:10.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:10.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:10.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:10.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:10.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:10.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:10.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.775][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:10.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:10.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:10.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:10.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:10.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:10.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:10.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:10.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:10.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:10.808][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:10.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:10.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:10.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:10.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:10.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:10.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:10.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:10.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.833][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.834][private$selectFields]
biodb.TRACE[2024-06-08 16:03:10.835][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:10.836][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:10.837][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.840][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.842][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.847][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.850][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.856][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:10.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.883][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:03:10.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:10.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:10.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:10.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:10.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:10.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:10.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:10.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.953][private$selectFields]
biodb.TRACE[2024-06-08 16:03:10.954][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:10.955][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:10.956][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.957][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.961][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.962][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.963][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.966][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.981][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:10.982][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.983][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.986][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.987][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:10.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:10.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:10.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:10.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.003][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:03:11.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:11.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:11.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:11.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:11.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:11.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:11.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:11.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:11.028][private$selectFields]
biodb.TRACE[2024-06-08 16:03:11.030][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:11.031][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:11.032][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:11.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.039][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.042][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:11.044][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:11.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.049][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:11.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:11.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.066][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:03:11.067][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:11.069][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:11.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:11.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:11.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:11.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:11.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:11.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:11.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:11.086][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:11.090][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:11.092][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:11.094][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:11.464][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:11.834][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:11.837][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content"
biodb.TRACE[2024-06-08 16:03:11.842][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.request"
biodb.DEBUG[2024-06-08 16:03:11.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:11.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:11.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:11.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:11.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:11.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:11.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:11.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:11.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:11.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:11.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:11.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:11.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:11.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:11.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:11.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:11.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:11.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:11.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:11.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:11.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:11.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:11.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:11.886][private$loadEntries] Creating entries from ids [1]: "91601".
biodb.DEBUG[2024-06-08 16:03:11.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:11.889][cch$loadFileContent] Trying to load 1 files from cache: [1]: "91601".
biodb.TRACE[2024-06-08 16:03:11.890][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:11.892][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:11.893][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:11.894][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:11.896][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:11.897][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:11.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:11.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:11.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:11.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:11.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:11.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:11.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:11.913][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.DEBUG[2024-06-08 16:03:11.916][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:11.917][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:11.919][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601".
biodb.TRACE[2024-06-08 16:03:12.287][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=91601).
biodb.DEBUG[2024-06-08 16:03:12.659][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:12.661][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.content"
biodb.TRACE[2024-06-08 16:03:12.666][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aa7bc0b3048e5fb322307698a3f56fa6.request"
biodb.TRACE[2024-06-08 16:03:12.669][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91601.xml"
biodb.DEBUG[2024-06-08 16:03:12.671][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:12.673][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:12.674][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:12.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:12.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:12.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:12.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:12.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:12.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:12.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:12.691][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.692][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.702][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:12.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:12.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.705][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.707][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:12.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:12.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.712][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:12.713][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:12.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.716][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.722][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:12.724][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:12.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.726][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:12.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.733][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:12.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:12.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:12.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:12.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.743][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:12.744][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:12.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.747][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.748][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:12.749][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:12.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.752][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.754][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:12.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:12.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.759][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.760][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.780][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:12.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:12.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.783][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:12.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:12.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.790][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:12.791][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:12.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.795][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:12.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:12.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.800][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:12.801][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:12.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.805][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:12.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:12.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:12.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:12.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:12.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:12.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:12.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:12.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:12.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:12.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:12.860][self$createEntryFromContent] Accession numbers: 91601.
biodb.TRACE[2024-06-08 16:03:12.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:12.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:12.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:12.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:12.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:12.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:12.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:12.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:12.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:12.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:12.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:12.889][private$loadEntries] Creating entries from ids [1]: "95147".
biodb.DEBUG[2024-06-08 16:03:12.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:12.893][cch$loadFileContent] Trying to load 1 files from cache: [1]: "95147".
biodb.TRACE[2024-06-08 16:03:12.894][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:12.896][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:12.897][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:12.898][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:12.899][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:12.901][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:12.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:12.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:12.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:12.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:12.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:12.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:12.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:12.918][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.DEBUG[2024-06-08 16:03:12.922][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:12.923][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:12.925][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147".
biodb.TRACE[2024-06-08 16:03:13.315][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=95147).
biodb.DEBUG[2024-06-08 16:03:13.684][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:13.686][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.content"
biodb.TRACE[2024-06-08 16:03:13.691][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5dbc153d74635342b8ea0e83790c39e.request"
biodb.TRACE[2024-06-08 16:03:13.694][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/95147.xml"
biodb.DEBUG[2024-06-08 16:03:13.696][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:13.698][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:13.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:13.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:13.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:13.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:13.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:13.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:13.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:13.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:13.716][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.720][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.726][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:13.728][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:13.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.732][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:13.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:13.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.737][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:13.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:13.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.740][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.742][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:13.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:13.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:13.749][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:13.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.751][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:13.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:13.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.758][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:13.759][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:13.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:13.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:13.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:13.769][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:13.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.772][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.773][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:13.775][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:13.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.778][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:13.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:13.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.784][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.785][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.787][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.794][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:13.795][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:13.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.799][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:13.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:13.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.804][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:13.806][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:13.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:13.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:13.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.815][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:13.816][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:13.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.818][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:13.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:13.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:13.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:13.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:13.876][self$createEntryFromContent] Accession numbers: 95147.
biodb.TRACE[2024-06-08 16:03:13.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:13.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:13.892][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:13.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:13.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:13.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:13.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:13.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:13.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:13.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:13.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:13.918][private$selectFields]
biodb.TRACE[2024-06-08 16:03:13.919][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:13.920][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:13.921][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:13.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.926][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.931][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.932][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:13.933][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:13.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.939][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:13.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.967][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:03:13.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:13.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:13.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:13.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:13.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:13.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:13.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:13.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:13.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:13.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:13.993][private$selectFields]
biodb.TRACE[2024-06-08 16:03:13.994][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:13.995][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:13.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:13.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:13.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.002][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.003][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.007][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:14.008][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:14.009][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.013][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.014][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:14.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.031][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-06-08 16:03:14.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:14.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:14.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:14.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:14.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:14.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:14.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:14.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.055][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:14.056][private$selectFields]
biodb.TRACE[2024-06-08 16:03:14.057][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:14.058][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:14.060][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:14.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.065][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.066][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.071][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:14.072][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:14.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.078][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:14.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:14.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:14.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:14.094][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-06-08 16:03:14.096][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:14.097][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:14.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:14.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:14.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:14.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:14.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:14.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:14.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:14.114][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:14.119][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:14.120][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:14.123][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:14.497][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:14.870][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:14.872][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content"
biodb.TRACE[2024-06-08 16:03:14.878][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.request"
biodb.DEBUG[2024-06-08 16:03:14.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:14.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:14.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:14.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:14.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:14.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:14.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:14.895][private$loadEntries] Creating entries from ids [1]: "636".
biodb.DEBUG[2024-06-08 16:03:14.896][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:14.898][cch$loadFileContent] Trying to load 1 files from cache: [1]: "636".
biodb.TRACE[2024-06-08 16:03:14.900][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:14.901][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:14.903][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:14.904][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:14.905][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:14.907][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:14.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:14.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:14.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:14.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:14.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:14.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:14.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:14.924][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.DEBUG[2024-06-08 16:03:14.928][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:14.929][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:14.931][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636".
biodb.TRACE[2024-06-08 16:03:15.302][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=636).
biodb.DEBUG[2024-06-08 16:03:15.672][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:15.675][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.content"
biodb.TRACE[2024-06-08 16:03:15.679][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ccb008951a89970d7f0e2dfe6ae3860d.request"
biodb.TRACE[2024-06-08 16:03:15.683][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/636.xml"
biodb.DEBUG[2024-06-08 16:03:15.685][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:15.686][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:15.688][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:15.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:15.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:15.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:15.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:15.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:15.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:15.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:15.705][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.707][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.709][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.715][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:15.717][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:15.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.719][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.721][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:15.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:15.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.726][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:15.727][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:15.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.731][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:15.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:15.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.737][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:15.738][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:15.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.740][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.742][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:15.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:15.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:15.749][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:15.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.751][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:15.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:15.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.758][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:15.759][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:15.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.763][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:15.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:15.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.768][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:15.769][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:15.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.771][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.773][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:15.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:15.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.779][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.780][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.788][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:15.790][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:15.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.792][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.794][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:15.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:15.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.799][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:15.800][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:15.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.803][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.804][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:15.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:15.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.809][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:15.810][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:15.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.813][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:15.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:15.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:15.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:15.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:15.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:15.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:15.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:15.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:15.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:15.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:15.868][self$createEntryFromContent] Accession numbers: 636.
biodb.TRACE[2024-06-08 16:03:15.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:15.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:15.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:15.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:15.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:15.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:15.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:15.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:15.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:15.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:15.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:15.909][private$loadEntries] Creating entries from ids [1]: "64199".
biodb.DEBUG[2024-06-08 16:03:15.911][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:15.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64199".
biodb.TRACE[2024-06-08 16:03:15.914][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:15.916][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:15.917][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:15.918][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:15.919][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:15.921][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:15.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:15.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:15.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:15.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:15.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:15.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:15.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:15.937][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.DEBUG[2024-06-08 16:03:15.940][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:15.942][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:15.943][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199".
biodb.TRACE[2024-06-08 16:03:16.315][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64199).
biodb.DEBUG[2024-06-08 16:03:16.684][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:16.686][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.content"
biodb.TRACE[2024-06-08 16:03:16.691][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a31cc2b07404761abdda19d4ffeaa880.request"
biodb.TRACE[2024-06-08 16:03:16.694][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64199.xml"
biodb.DEBUG[2024-06-08 16:03:16.696][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:16.697][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:16.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:16.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:16.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:16.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:16.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:16.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:16.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:16.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:16.715][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.716][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.718][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.725][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:16.726][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:16.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.728][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.735][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:16.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:16.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:16.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:16.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:16.746][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:16.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.748][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:16.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:16.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.755][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:16.756][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:16.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:16.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:16.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.765][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:16.766][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:16.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.769][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.770][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:16.771][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:16.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.775][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:16.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:16.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.782][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.784][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.790][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:16.792][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:16.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:16.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:16.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.801][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:16.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:16.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:16.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:16.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.811][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:16.812][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:16.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.816][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:16.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:16.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:16.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:16.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:16.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:16.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:16.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:16.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:16.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:16.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:16.871][self$createEntryFromContent] Accession numbers: 64199.
biodb.TRACE[2024-06-08 16:03:16.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:16.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:16.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:16.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:16.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:16.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:16.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:16.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:16.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:16.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:16.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:16.900][private$loadEntries] Creating entries from ids [1]: "65648".
biodb.DEBUG[2024-06-08 16:03:16.901][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:16.903][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65648".
biodb.TRACE[2024-06-08 16:03:16.905][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:16.906][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:16.907][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:16.909][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:16.910][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:16.911][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:16.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:16.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:16.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:16.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:16.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:16.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:16.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:16.927][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.DEBUG[2024-06-08 16:03:16.931][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:16.932][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:16.934][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648".
biodb.TRACE[2024-06-08 16:03:17.303][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65648).
biodb.DEBUG[2024-06-08 16:03:17.675][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:17.678][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.content"
biodb.TRACE[2024-06-08 16:03:17.682][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4176d017d73a3b7cdd77f889aa9b1b1d.request"
biodb.TRACE[2024-06-08 16:03:17.685][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65648.xml"
biodb.DEBUG[2024-06-08 16:03:17.687][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:17.689][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:17.690][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:17.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:17.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:17.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:17.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:17.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:17.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:17.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:17.707][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.709][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.711][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.717][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:17.719][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:17.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.721][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:17.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:17.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.728][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:17.729][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:17.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.732][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.733][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:17.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:17.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.738][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:17.740][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:17.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.742][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:17.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.748][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:17.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:17.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.752][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:17.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:17.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.759][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:17.760][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:17.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.762][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.764][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:17.765][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:17.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.767][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.769][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:17.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:17.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.775][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.784][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:17.795][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:17.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:17.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:17.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.804][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:17.806][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:17.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:17.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:17.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.815][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:17.816][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:17.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.821][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:17.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:17.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:17.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:17.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:17.875][self$createEntryFromContent] Accession numbers: 65648.
biodb.TRACE[2024-06-08 16:03:17.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:17.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:17.891][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:17.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:17.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:17.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:17.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:17.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:17.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:17.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:17.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.918][private$selectFields]
biodb.TRACE[2024-06-08 16:03:17.919][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:17.920][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:17.921][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.926][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.931][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.932][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.934][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.940][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:17.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.956][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-06-08 16:03:17.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:17.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:17.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:17.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:17.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:17.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:17.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:17.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.982][private$selectFields]
biodb.TRACE[2024-06-08 16:03:17.983][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:17.984][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:17.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.987][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.990][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:17.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:17.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:17.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.998][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:17.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.004][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.021][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-06-08 16:03:18.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.047][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.049][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.050][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.063][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.069][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.086][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-06-08 16:03:18.087][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:18.088][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:03:18.099][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:18.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:18.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.104][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:18.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:18.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.109][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:18.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:18.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:03:18.118][biodb::testThat]
biodb.INFO [2024-06-08 16:03:18.119][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-06-08 16:03:18.120][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:03:18.122][biodb::testThat]
biodb.TRACE[2024-06-08 16:03:18.125][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:18.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:18.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.130][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:18.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:18.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.135][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:18.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:18.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:18.221][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:18.230][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:18.232][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:03:18.233][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:18.235][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:03:18.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.267][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:18.271][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:18.273][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:03:18.275][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:18.276][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:03:18.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.337][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:18.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.363][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.364][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.366][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.367][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.368][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.376][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.381][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.382][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.383][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.386][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.387][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.404][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-08 16:03:18.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.429][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.430][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.431][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.432][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.438][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.439][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.441][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.443][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.444][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.446][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.447][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.448][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.450][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.452][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.469][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:03:18.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.494][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.495][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.496][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.498][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.504][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.505][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.506][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.509][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.510][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.511][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.513][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.514][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.516][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.518][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.535][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-08 16:03:18.536][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:18.538][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:18.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:18.555][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:18.560][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:18.561][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-06-08 16:03:18.563][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:18.564][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-06-08 16:03:18.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.625][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:18.629][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:18.631][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-06-08 16:03:18.632][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:18.634][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-06-08 16:03:18.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.726][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:18.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.752][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.760][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.765][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.766][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.767][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.772][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.773][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.791][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:03:18.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.815][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.816][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.817][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.818][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.822][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.825][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.826][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.827][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.831][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.832][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.837][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.838][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.855][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:03:18.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.881][private$selectFields]
biodb.TRACE[2024-06-08 16:03:18.882][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:18.883][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:18.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.889][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.890][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.892][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.893][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.894][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.897][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:18.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.903][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:18.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:18.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.919][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:03:18.921][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:18.922][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:18.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:18.939][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:18.943][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:18.945][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-06-08 16:03:18.947][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:18.948][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-06-08 16:03:18.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:18.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:18.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:18.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:18.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:18.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:18.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:18.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:18.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:18.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:18.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:19.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:19.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:19.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:19.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:19.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:19.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:19.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:19.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:19.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:19.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:19.036][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:19.040][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:19.042][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:19.044][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:19.417][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:19.882][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:19.884][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.content"
biodb.TRACE[2024-06-08 16:03:19.890][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dd9d19fb78fcc7453eff2e9dd7ba5702.request"
biodb.DEBUG[2024-06-08 16:03:19.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:19.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:19.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:19.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:19.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:19.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:19.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:19.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:19.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:19.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:19.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:19.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:19.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:19.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:19.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:19.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:19.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:19.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:19.951][private$loadEntries] Creating entries from ids [1]: "3017".
biodb.DEBUG[2024-06-08 16:03:19.953][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:19.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3017".
biodb.TRACE[2024-06-08 16:03:19.957][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:19.958][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:19.959][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:19.961][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:19.962][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:19.963][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:19.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:19.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:19.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:19.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:19.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:19.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:19.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:19.980][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.DEBUG[2024-06-08 16:03:19.984][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:19.985][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:19.987][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017".
biodb.TRACE[2024-06-08 16:03:20.355][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3017).
biodb.DEBUG[2024-06-08 16:03:20.728][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:20.731][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.content"
biodb.TRACE[2024-06-08 16:03:20.736][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a0d2dadbafdef2154bb32b0db7e287ac.request"
biodb.TRACE[2024-06-08 16:03:20.739][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3017.xml"
biodb.DEBUG[2024-06-08 16:03:20.741][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:20.743][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:20.744][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:20.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:20.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:20.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:20.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:20.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:20.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:20.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:20.760][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.762][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.763][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.764][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.771][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:20.772][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:20.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.776][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:20.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.781][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:20.782][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:20.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.784][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.786][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:20.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.791][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:20.792][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:20.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:20.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:20.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.801][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:20.802][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:20.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.805][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.806][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:20.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:20.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.811][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:20.812][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:20.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.816][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:20.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:20.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.821][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:20.823][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.825][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.826][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:20.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.831][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:20.833][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:20.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.835][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:20.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:20.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.842][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:20.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:20.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.845][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:20.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:20.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.852][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:20.853][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:20.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.857][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:20.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:20.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.862][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:20.863][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:20.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.866][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:20.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:20.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:20.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:20.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:20.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:20.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:20.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:20.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:20.922][self$createEntryFromContent] Accession numbers: 3017.
biodb.TRACE[2024-06-08 16:03:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:20.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:20.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:20.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:20.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:20.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:20.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:20.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:20.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:20.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:20.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:20.952][private$loadEntries] Creating entries from ids [1]: "3510".
biodb.DEBUG[2024-06-08 16:03:20.953][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:20.955][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3510".
biodb.TRACE[2024-06-08 16:03:20.957][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:20.958][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:20.960][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:20.961][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:20.963][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:20.964][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:20.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:20.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:20.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:20.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:20.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:20.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:20.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:20.989][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.DEBUG[2024-06-08 16:03:20.992][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:20.994][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:20.995][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510".
biodb.TRACE[2024-06-08 16:03:21.365][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3510).
biodb.DEBUG[2024-06-08 16:03:21.733][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:21.736][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.content"
biodb.TRACE[2024-06-08 16:03:21.740][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/58362fa70b44eecb6a87afbf9b6dfd8b.request"
biodb.TRACE[2024-06-08 16:03:21.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3510.xml"
biodb.DEBUG[2024-06-08 16:03:21.745][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:21.747][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:21.748][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:21.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:21.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:21.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:21.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:21.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:21.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:21.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:21.765][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.768][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.775][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:21.776][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:21.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.778][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.780][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:21.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:21.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.785][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:21.786][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:21.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:21.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:21.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.795][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:21.796][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:21.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:21.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:21.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.805][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:21.807][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:21.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.809][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:21.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:21.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.815][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:21.817][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:21.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:21.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:21.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.826][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:21.827][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.829][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.831][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:21.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.836][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:21.837][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:21.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:21.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:21.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.846][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:21.847][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:21.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:21.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:21.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.868][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:21.869][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:21.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:21.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:21.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.878][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:21.879][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:21.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.883][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:21.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:21.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:21.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:21.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:21.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:21.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:21.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:21.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:21.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:21.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:21.939][self$createEntryFromContent] Accession numbers: 3510.
biodb.TRACE[2024-06-08 16:03:21.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:21.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:21.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:21.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:21.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:21.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:21.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:21.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:21.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:21.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:21.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:21.968][private$loadEntries] Creating entries from ids [1]: "7554".
biodb.DEBUG[2024-06-08 16:03:21.969][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:21.971][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7554".
biodb.TRACE[2024-06-08 16:03:21.973][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:21.974][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:21.976][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:21.977][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:21.978][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:21.979][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:21.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:21.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:21.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:21.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:21.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:21.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:21.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:21.996][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.DEBUG[2024-06-08 16:03:21.999][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:22.001][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:22.002][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554".
biodb.TRACE[2024-06-08 16:03:22.370][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7554).
biodb.DEBUG[2024-06-08 16:03:22.741][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:22.743][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.content"
biodb.TRACE[2024-06-08 16:03:22.748][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66bd6c2472b2485e58ad424b4505cbea.request"
biodb.TRACE[2024-06-08 16:03:22.751][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7554.xml"
biodb.DEBUG[2024-06-08 16:03:22.753][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:22.755][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:22.757][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:22.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:22.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:22.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:22.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:22.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:22.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:22.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:22.774][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.776][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.777][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.778][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.784][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:22.786][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:22.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.790][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:22.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:22.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.795][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:22.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:22.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:22.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:22.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.805][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:22.806][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:22.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.809][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:22.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:22.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:22.817][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:22.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.821][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:22.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:22.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.826][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:22.827][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:22.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.829][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:22.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:22.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.836][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:22.838][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.842][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:22.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.847][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:22.848][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:22.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:22.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:22.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.857][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:22.859][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:22.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:22.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:22.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.868][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:22.869][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:22.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.873][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:22.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:22.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:22.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:22.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:22.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:22.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:22.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:22.939][self$createEntryFromContent] Accession numbers: 7554.
biodb.TRACE[2024-06-08 16:03:22.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:22.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:22.955][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:22.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:22.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:22.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:22.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:22.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:22.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:22.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:22.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.980][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:22.981][private$selectFields]
biodb.TRACE[2024-06-08 16:03:22.983][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:22.984][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:22.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:22.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.990][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:22.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:22.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:22.996][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:22.998][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:22.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.001][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.002][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.004][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:23.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.028][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:03:23.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.054][private$selectFields]
biodb.TRACE[2024-06-08 16:03:23.055][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:23.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:23.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.059][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.070][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.072][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.076][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:23.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.092][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3017].
biodb.DEBUG[2024-06-08 16:03:23.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.116][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.117][private$selectFields]
biodb.TRACE[2024-06-08 16:03:23.118][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:23.120][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:23.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.126][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.127][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.128][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.129][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.130][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.133][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.134][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.135][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.139][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:23.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.155][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7554].
biodb.DEBUG[2024-06-08 16:03:23.156][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:23.157][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:03:23.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:23.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:23.247][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:23.252][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:23.254][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-08 16:03:23.255][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:23.257][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-08 16:03:23.261][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:23.265][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:23.267][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-08 16:03:23.268][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:23.270][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-08 16:03:23.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:23.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:23.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:23.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:23.359][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:23.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.385][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.386][private$selectFields]
biodb.TRACE[2024-06-08 16:03:23.387][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:23.388][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:23.390][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.391][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.392][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.400][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.402][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.405][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.407][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.409][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:23.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.425][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:03:23.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.451][private$selectFields]
biodb.TRACE[2024-06-08 16:03:23.452][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:23.454][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:23.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.466][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.473][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.476][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.478][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.480][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:23.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.496][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:03:23.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:23.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.521][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.522][private$selectFields]
biodb.TRACE[2024-06-08 16:03:23.523][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:23.524][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:23.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.528][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.531][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.538][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:23.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.541][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.543][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:23.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:23.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:23.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:23.561][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:03:23.562][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:23.563][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:23.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:23.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:23.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:23.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:23.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:23.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:23.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:23.582][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:23.586][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:23.587][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:23.590][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:23.963][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:24.334][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:24.336][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.content"
biodb.TRACE[2024-06-08 16:03:24.342][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f88afce5e7bcb0842d474b04c0bef37a.request"
biodb.DEBUG[2024-06-08 16:03:24.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:24.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:24.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:24.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:24.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:24.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:24.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:24.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:24.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:24.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:24.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:24.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:24.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:24.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:24.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:24.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:24.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:24.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:24.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:24.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:24.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:24.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:24.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:24.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:24.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:24.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:24.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:24.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:24.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:24.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:24.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:24.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:24.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:24.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:24.416][private$loadEntries] Creating entries from ids [1]: "27495".
biodb.DEBUG[2024-06-08 16:03:24.418][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:24.420][cch$loadFileContent] Trying to load 1 files from cache: [1]: "27495".
biodb.TRACE[2024-06-08 16:03:24.421][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:24.423][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:24.424][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:24.426][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:24.427][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:24.428][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:24.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:24.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:24.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:24.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:24.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:24.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:24.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:24.445][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.DEBUG[2024-06-08 16:03:24.449][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:24.450][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:24.452][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495".
biodb.TRACE[2024-06-08 16:03:24.821][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=27495).
biodb.DEBUG[2024-06-08 16:03:25.191][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:25.193][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.content"
biodb.TRACE[2024-06-08 16:03:25.198][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/edda5d46cbbeda6cad9b4593b6925e01.request"
biodb.TRACE[2024-06-08 16:03:25.201][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/27495.xml"
biodb.DEBUG[2024-06-08 16:03:25.203][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:25.204][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:25.206][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:25.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.223][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.226][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.233][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:25.234][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:25.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.237][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.238][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:25.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:25.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.243][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:25.245][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:25.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.249][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:25.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:25.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.254][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:25.256][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:25.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.260][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:25.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:25.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:25.266][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:25.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.269][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:25.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:25.277][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:25.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.279][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.281][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:25.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:25.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.286][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:25.287][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:25.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.289][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.291][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:25.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.296][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.297][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.306][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:25.308][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:25.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.310][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:25.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:25.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.317][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:25.318][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:25.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.321][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:25.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.327][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:25.329][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:25.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.331][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.332][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:25.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:25.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:25.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:25.398][self$createEntryFromContent] Accession numbers: 27495.
biodb.TRACE[2024-06-08 16:03:25.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:25.415][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:25.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.418][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.440][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.441][private$selectFields]
biodb.TRACE[2024-06-08 16:03:25.442][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:25.443][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:25.445][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.450][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.455][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.457][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.458][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.460][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.462][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.463][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:25.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.480][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:03:25.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.505][private$selectFields]
biodb.TRACE[2024-06-08 16:03:25.506][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:25.507][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:25.509][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.510][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.511][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.512][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.514][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.515][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.516][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.517][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.519][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.521][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.526][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.527][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:25.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.544][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:03:25.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.569][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.570][private$selectFields]
biodb.TRACE[2024-06-08 16:03:25.571][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:25.573][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:25.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.575][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.579][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.580][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.581][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.584][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.585][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.586][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:25.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.591][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.592][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:25.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:25.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.609][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [27495].
biodb.DEBUG[2024-06-08 16:03:25.611][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:25.612][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:25.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:25.630][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:25.634][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:25.636][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-06-08 16:03:25.637][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:25.639][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-06-08 16:03:25.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:25.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:25.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:25.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:25.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:25.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:25.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:25.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:25.742][private$loadEntries] Creating entries from ids [1]: "65675".
biodb.DEBUG[2024-06-08 16:03:25.743][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:25.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65675".
biodb.TRACE[2024-06-08 16:03:25.747][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:25.748][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:25.749][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:25.751][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:25.752][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:25.753][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:25.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:25.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:25.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:25.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:25.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:25.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:25.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:25.770][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.DEBUG[2024-06-08 16:03:25.773][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:25.775][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:25.777][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675".
biodb.TRACE[2024-06-08 16:03:26.144][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65675).
biodb.DEBUG[2024-06-08 16:03:26.512][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:26.514][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.content"
biodb.TRACE[2024-06-08 16:03:26.518][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5e9eb5601826c5f1539c216fc81b6e57.request"
biodb.TRACE[2024-06-08 16:03:26.522][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65675.xml"
biodb.DEBUG[2024-06-08 16:03:26.524][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:26.526][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:26.527][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:26.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:26.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:26.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:26.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:26.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:26.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:26.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:26.552][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.553][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.562][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:26.563][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:26.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.567][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:26.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:26.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.572][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:26.573][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:26.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.577][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:26.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:26.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.582][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:26.583][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:26.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.586][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:26.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:26.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.592][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:26.594][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:26.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:26.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:26.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.602][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:26.604][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:26.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.607][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:26.609][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:26.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.613][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:26.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:26.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.618][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.619][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.621][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.628][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:26.629][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:26.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.631][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.633][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:26.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:26.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.638][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:26.639][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:26.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.643][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:26.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:26.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:26.650][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:26.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.652][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:26.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:26.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:26.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:26.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:26.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:26.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:26.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:26.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:26.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:26.708][self$createEntryFromContent] Accession numbers: 65675.
biodb.TRACE[2024-06-08 16:03:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:26.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:26.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:26.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:26.725][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:26.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:26.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:26.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:26.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:26.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:26.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:26.738][private$loadEntries] Creating entries from ids [1]: "66318".
biodb.DEBUG[2024-06-08 16:03:26.739][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:26.741][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66318".
biodb.TRACE[2024-06-08 16:03:26.743][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:26.745][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:26.746][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:26.747][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:26.748][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:26.750][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:26.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:26.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:26.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:26.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:26.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:26.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:26.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:26.766][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.DEBUG[2024-06-08 16:03:26.770][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:26.771][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:26.773][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318".
biodb.TRACE[2024-06-08 16:03:27.143][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66318).
biodb.DEBUG[2024-06-08 16:03:27.512][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:27.515][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.content"
biodb.TRACE[2024-06-08 16:03:27.520][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f7af403e0af2ad309d5e7b7572ad9eab.request"
biodb.TRACE[2024-06-08 16:03:27.523][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66318.xml"
biodb.DEBUG[2024-06-08 16:03:27.525][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:27.527][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:27.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:27.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:27.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:27.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:27.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:27.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:27.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:27.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:27.546][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.547][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.556][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:27.557][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:27.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.560][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.562][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:27.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:27.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.567][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:27.568][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:27.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.570][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.572][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:27.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:27.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.577][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:27.579][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:27.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.582][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:27.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:27.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.588][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:27.590][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:27.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.592][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:27.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:27.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:27.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.603][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.604][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:27.606][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:27.607][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.608][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.618][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.625][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:27.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:27.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.628][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:27.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:27.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.635][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:27.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:27.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.639][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:27.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:27.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.646][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:27.647][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:27.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.649][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:27.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:27.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:27.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:27.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:27.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:27.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:27.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:27.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:27.717][self$createEntryFromContent] Accession numbers: 66318.
biodb.TRACE[2024-06-08 16:03:27.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:27.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:27.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:27.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:27.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:27.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:27.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:27.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:27.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:27.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:27.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:27.746][private$loadEntries] Creating entries from ids [1]: "67547".
biodb.DEBUG[2024-06-08 16:03:27.748][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:27.749][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67547".
biodb.TRACE[2024-06-08 16:03:27.751][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:27.752][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:27.754][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:27.755][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:27.756][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:27.757][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:27.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:27.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:27.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:27.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:27.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:27.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:27.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:27.773][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.DEBUG[2024-06-08 16:03:27.777][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:27.778][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:27.779][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547".
biodb.TRACE[2024-06-08 16:03:28.147][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67547).
biodb.DEBUG[2024-06-08 16:03:28.605][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:28.608][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.content"
biodb.TRACE[2024-06-08 16:03:28.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5dcb6d289b29a3e5a91ef3f664ac8354.request"
biodb.TRACE[2024-06-08 16:03:28.615][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67547.xml"
biodb.DEBUG[2024-06-08 16:03:28.617][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:28.619][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:28.620][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:28.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:28.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:28.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:28.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:28.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:28.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:28.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:28.637][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.647][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:28.649][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:28.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.652][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:28.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:28.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.657][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:28.659][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:28.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.663][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:28.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:28.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.667][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:28.669][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:28.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:28.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.678][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:28.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:28.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:28.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:28.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.688][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:28.689][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:28.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.691][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:28.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:28.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.698][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:28.699][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:28.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.701][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.703][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:28.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:28.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.708][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.710][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.712][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.719][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:28.720][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:28.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.722][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:28.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:28.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.729][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:28.731][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:28.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.733][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.735][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:28.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:28.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.740][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:28.741][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:28.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.744][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:28.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:28.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:28.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:28.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:28.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:28.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:28.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:28.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:28.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:28.801][self$createEntryFromContent] Accession numbers: 67547.
biodb.TRACE[2024-06-08 16:03:28.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:28.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:28.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:28.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:28.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:28.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:28.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:28.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:28.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:28.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:28.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:28.831][private$loadEntries] Creating entries from ids [1]: "69550".
biodb.DEBUG[2024-06-08 16:03:28.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:28.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69550".
biodb.TRACE[2024-06-08 16:03:28.835][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:28.837][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:28.838][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:28.840][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:28.841][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:28.842][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:28.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:28.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:28.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:28.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:28.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:28.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:28.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:28.859][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.DEBUG[2024-06-08 16:03:28.862][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:28.864][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:28.865][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550".
biodb.TRACE[2024-06-08 16:03:29.234][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69550).
biodb.DEBUG[2024-06-08 16:03:29.604][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:29.607][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.content"
biodb.TRACE[2024-06-08 16:03:29.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/05703421c7bf99b1d8473c1de6165168.request"
biodb.TRACE[2024-06-08 16:03:29.615][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69550.xml"
biodb.DEBUG[2024-06-08 16:03:29.617][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:29.619][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:29.620][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:29.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:29.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:29.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:29.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:29.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:29.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:29.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:29.637][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.647][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:29.648][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:29.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.652][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:29.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:29.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.657][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:29.658][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:29.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.662][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:29.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:29.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.667][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:29.669][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:29.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:29.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:29.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.678][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:29.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:29.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:29.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:29.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.688][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:29.689][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:29.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.692][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.693][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:29.695][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:29.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.697][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.709][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:29.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:29.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.714][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.718][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.724][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:29.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:29.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.728][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:29.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:29.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.735][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:29.736][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:29.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.740][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:29.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:29.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.745][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:29.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:29.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.748][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:29.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:29.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:29.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:29.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:29.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:29.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:29.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:29.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:29.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:29.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:29.804][self$createEntryFromContent] Accession numbers: 69550.
biodb.TRACE[2024-06-08 16:03:29.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:29.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:29.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:29.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:29.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:29.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:29.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:29.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:29.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:29.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:29.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:29.833][private$loadEntries] Creating entries from ids [1]: "71520".
biodb.DEBUG[2024-06-08 16:03:29.834][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:29.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "71520".
biodb.TRACE[2024-06-08 16:03:29.838][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:29.839][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:29.840][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:29.842][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:29.843][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:29.844][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:29.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:29.848][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:29.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:29.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:29.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:29.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:29.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:29.860][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.DEBUG[2024-06-08 16:03:29.864][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:29.865][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:29.867][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520".
biodb.TRACE[2024-06-08 16:03:30.237][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=71520).
biodb.DEBUG[2024-06-08 16:03:30.608][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:30.611][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.content"
biodb.TRACE[2024-06-08 16:03:30.616][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7ceab0ba86590faa4ea87df2e390610.request"
biodb.TRACE[2024-06-08 16:03:30.619][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/71520.xml"
biodb.DEBUG[2024-06-08 16:03:30.621][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:30.622][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:30.624][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:30.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:30.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:30.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:30.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:30.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:30.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:30.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:30.641][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.644][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.651][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:30.652][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:30.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.655][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:30.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.662][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:30.663][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:30.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:30.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:30.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:30.674][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:30.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:30.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:30.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.683][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:30.684][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:30.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:30.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:30.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.694][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:30.695][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:30.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.697][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.699][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:30.700][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:30.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.703][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.704][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:30.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:30.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.709][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.711][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.713][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.715][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.720][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:30.721][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:30.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.724][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.725][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:30.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:30.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.730][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:30.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:30.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.736][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:30.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:30.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.741][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:30.742][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:30.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.744][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.746][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:30.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:30.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:30.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:30.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:30.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:30.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:30.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:30.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:30.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:30.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:30.802][self$createEntryFromContent] Accession numbers: 71520.
biodb.TRACE[2024-06-08 16:03:30.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:30.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:30.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:30.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:30.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:30.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:30.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:30.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:30.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:30.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:30.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:30.831][private$loadEntries] Creating entries from ids [1]: "77600".
biodb.DEBUG[2024-06-08 16:03:30.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:30.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77600".
biodb.TRACE[2024-06-08 16:03:30.835][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:30.837][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:30.838][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:30.839][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:30.841][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:30.842][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:30.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:30.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:30.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:30.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:30.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:30.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:30.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:30.859][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.DEBUG[2024-06-08 16:03:30.862][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:30.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:30.865][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600".
biodb.TRACE[2024-06-08 16:03:31.234][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77600).
biodb.DEBUG[2024-06-08 16:03:31.613][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:31.616][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.content"
biodb.TRACE[2024-06-08 16:03:31.621][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/91aa415bb91d90afd912e94b5d252faa.request"
biodb.TRACE[2024-06-08 16:03:31.624][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77600.xml"
biodb.DEBUG[2024-06-08 16:03:31.626][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:31.627][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:31.629][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:31.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:31.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:31.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:31.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:31.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:31.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:31.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:31.646][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.647][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.648][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.656][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:31.657][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:31.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.660][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.661][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:31.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:31.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.666][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:31.668][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:31.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.670][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.671][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:31.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:31.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.676][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:31.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:31.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.680][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:31.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:31.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:31.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:31.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.690][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:31.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:31.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.697][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:31.698][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:31.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.700][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.702][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:31.703][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:31.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.705][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.707][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:31.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:31.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.712][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.713][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.716][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.722][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:31.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:31.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.726][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:31.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:31.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.732][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:31.734][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:31.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.737][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:31.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:31.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.742][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:31.744][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:31.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.746][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.747][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:31.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:31.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:31.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:31.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:31.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:31.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:31.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:31.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:31.802][self$createEntryFromContent] Accession numbers: 77600.
biodb.TRACE[2024-06-08 16:03:31.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:31.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:31.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:31.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:31.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:31.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:31.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:31.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:31.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:31.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:31.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:31.831][private$loadEntries] Creating entries from ids [1]: "77601".
biodb.DEBUG[2024-06-08 16:03:31.832][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:31.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77601".
biodb.TRACE[2024-06-08 16:03:31.835][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:31.837][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:31.838][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:31.839][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:31.840][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:31.842][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:31.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:31.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:31.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:31.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:31.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:31.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:31.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:31.858][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.DEBUG[2024-06-08 16:03:31.861][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:31.863][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:31.864][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601".
biodb.TRACE[2024-06-08 16:03:32.233][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77601).
biodb.DEBUG[2024-06-08 16:03:32.602][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:32.604][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.content"
biodb.TRACE[2024-06-08 16:03:32.609][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ff0e48db0e5117b4127b12d15d1485a8.request"
biodb.TRACE[2024-06-08 16:03:32.612][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77601.xml"
biodb.DEBUG[2024-06-08 16:03:32.614][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:32.615][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:32.617][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:32.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:32.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:32.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:32.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:32.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:32.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:32.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:32.633][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.636][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.637][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.643][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:32.645][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:32.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.647][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.648][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:32.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:32.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.654][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:32.655][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:32.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.659][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:32.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:32.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.664][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:32.665][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:32.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.667][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.669][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:32.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:32.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.674][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:32.675][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:32.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:32.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:32.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.684][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:32.685][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:32.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.688][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.689][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:32.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:32.692][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.693][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.695][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:32.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:32.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.701][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.703][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.710][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:32.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:32.712][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.714][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:32.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:32.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.720][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:32.722][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:32.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.724][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.726][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:32.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:32.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:32.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:32.733][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:32.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:32.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:32.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:32.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:32.801][self$createEntryFromContent] Accession numbers: 77601.
biodb.TRACE[2024-06-08 16:03:32.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:32.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:32.819][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:32.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:32.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:32.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:32.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:32.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:32.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:32.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:32.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.845][private$selectFields]
biodb.TRACE[2024-06-08 16:03:32.846][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:32.847][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:32.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.850][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.856][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.858][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.860][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.861][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.866][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.867][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:32.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.883][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-06-08 16:03:32.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:32.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:32.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:32.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:32.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:32.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:32.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:32.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.909][private$selectFields]
biodb.TRACE[2024-06-08 16:03:32.910][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:32.911][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:32.912][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.922][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.924][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.925][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.926][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.930][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.931][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:32.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.948][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77600].
biodb.DEBUG[2024-06-08 16:03:32.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:32.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:32.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:32.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:32.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:32.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:32.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:32.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.972][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.974][private$selectFields]
biodb.TRACE[2024-06-08 16:03:32.975][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:32.976][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:32.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.981][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.982][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.987][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.988][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.990][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:32.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:32.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:32.996][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:32.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:32.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.014][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [77601].
biodb.DEBUG[2024-06-08 16:03:33.015][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:33.016][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:03:33.027][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:33.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.033][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:33.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:33.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.038][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:33.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:33.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:03:33.047][biodb::testThat]
biodb.INFO [2024-06-08 16:03:33.049][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-06-08 16:03:33.050][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:03:33.051][biodb::testThat]
biodb.TRACE[2024-06-08 16:03:33.055][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:33.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:33.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.060][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:33.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:33.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.065][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:33.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:33.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:33.153][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:33.157][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:33.159][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:03:33.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:33.162][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:03:33.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.193][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:33.198][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:33.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:03:33.201][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:33.208][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:03:33.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.268][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:33.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.293][private$selectFields]
biodb.TRACE[2024-06-08 16:03:33.294][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:33.296][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:33.297][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.299][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.302][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.303][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.305][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.308][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.309][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.310][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.316][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:33.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.334][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-08 16:03:33.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.358][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.359][private$selectFields]
biodb.TRACE[2024-06-08 16:03:33.361][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:33.362][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:33.363][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.375][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.381][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.382][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:33.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.399][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:03:33.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.424][private$selectFields]
biodb.TRACE[2024-06-08 16:03:33.426][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:33.427][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:33.428][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.438][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.439][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.441][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.446][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.447][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:33.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.463][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-08 16:03:33.465][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:33.466][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:33.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:33.484][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:33.488][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:33.490][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-06-08 16:03:33.492][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:33.494][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-06-08 16:03:33.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.552][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:33.557][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:33.558][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-06-08 16:03:33.560][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:33.561][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-06-08 16:03:33.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.653][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:33.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.677][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.678][private$selectFields]
biodb.TRACE[2024-06-08 16:03:33.680][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:33.681][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:33.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.692][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.694][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.699][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.700][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:33.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.717][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:03:33.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.741][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.742][private$selectFields]
biodb.TRACE[2024-06-08 16:03:33.743][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:33.744][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:33.746][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.750][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.755][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.758][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.764][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:33.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.781][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:03:33.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.807][private$selectFields]
biodb.TRACE[2024-06-08 16:03:33.808][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:33.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:33.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.820][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.822][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:33.824][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.825][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.827][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.828][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:33.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:33.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.845][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:03:33.846][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:33.847][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:33.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:33.865][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:33.870][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:33.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-06-08 16:03:33.873][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:33.875][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-06-08 16:03:33.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:33.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:33.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:33.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:33.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:33.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:33.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:33.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:33.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:33.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:33.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:33.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.112][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:34.116][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:34.118][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-06-08 16:03:34.120][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:34.122][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-06-08 16:03:34.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:34.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.210][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:34.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.237][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.239][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.240][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.246][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.253][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.260][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:34.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.276][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:03:34.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.301][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.302][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.304][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.305][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.311][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.316][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.319][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.320][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.324][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.325][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:34.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.342][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-06-08 16:03:34.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.368][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.369][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.370][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.374][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.376][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.378][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.379][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.380][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.381][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.384][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.389][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.391][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:34.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.408][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-06-08 16:03:34.409][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:34.410][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:03:34.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:34.524][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:34.529][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:34.530][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-08 16:03:34.532][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:34.534][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-08 16:03:34.537][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:34.542][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:34.543][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-08 16:03:34.545][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:34.547][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-08 16:03:34.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.635][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:34.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.662][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.663][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.664][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.665][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.670][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.673][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.675][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.677][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.678][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.679][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.680][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.683][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.684][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:34.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.701][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:03:34.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.725][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.727][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.728][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.729][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.739][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.743][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.744][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.747][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.748][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.749][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.750][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:34.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.767][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:03:34.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.794][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.795][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.796][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.797][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.800][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.802][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.804][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.805][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.809][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.810][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.817][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:34.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:03:34.836][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:34.837][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:34.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:34.855][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:34.859][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:34.861][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-06-08 16:03:34.862][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:34.864][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-06-08 16:03:34.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:34.960][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:34.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:34.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:34.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:34.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:34.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:34.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:34.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:34.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.987][private$selectFields]
biodb.TRACE[2024-06-08 16:03:34.988][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:34.989][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:34.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:34.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:34.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:34.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:34.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.003][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.008][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.010][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.026][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:03:35.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.052][private$selectFields]
biodb.TRACE[2024-06-08 16:03:35.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:35.055][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:35.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.057][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.058][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.066][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.068][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.074][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:35.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.092][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-06-08 16:03:35.094][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.119][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.120][private$selectFields]
biodb.TRACE[2024-06-08 16:03:35.121][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:35.122][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:35.123][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.129][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.131][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.133][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.134][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.136][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.140][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.142][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:35.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.159][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-06-08 16:03:35.160][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:35.161][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:35.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:35.180][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:35.185][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:35.187][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-06-08 16:03:35.188][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:35.190][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-06-08 16:03:35.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:35.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:35.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:35.280][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:35.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.307][private$selectFields]
biodb.TRACE[2024-06-08 16:03:35.308][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:35.309][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:35.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.317][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.324][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.330][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:35.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.347][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-06-08 16:03:35.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.379][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.380][private$selectFields]
biodb.TRACE[2024-06-08 16:03:35.381][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:35.382][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:35.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.388][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.390][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.391][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.395][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.396][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.401][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.402][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:35.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.418][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-06-08 16:03:35.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.444][private$selectFields]
biodb.TRACE[2024-06-08 16:03:35.445][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:35.446][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:35.448][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.453][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.454][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.456][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.458][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.459][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.460][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:35.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.465][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.466][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:35.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:35.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.483][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-06-08 16:03:35.484][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:35.485][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:03:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:35.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:35.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.516][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:35.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:35.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.521][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:35.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:03:35.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.530][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:35.531][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:35.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.533][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.535][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.536][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:35.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.538][ef$get] fields variable is a list.
biodb.INFO [2024-06-08 16:03:35.540][biodb::testThat]
biodb.INFO [2024-06-08 16:03:35.542][biodb::testThat] Running test function  test.annotateMzValues_real_values  (" annotateMzValues() works correctly with real values. ").
biodb.INFO [2024-06-08 16:03:35.543][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:03:35.544][biodb::testThat]
biodb.TRACE[2024-06-08 16:03:35.548][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:35.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:35.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.553][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:35.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:35.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.558][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:03:35.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:03:35.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:35.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:35.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:35.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:35.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:35.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:35.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:35.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:35.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:35.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:35.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:35.643][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:35.647][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:35.649][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:35.651][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:36.027][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:36.490][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:36.493][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content"
biodb.TRACE[2024-06-08 16:03:36.498][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.request"
biodb.DEBUG[2024-06-08 16:03:36.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:36.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:36.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:36.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:36.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:36.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:36.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:36.520][private$loadEntries] Creating entries from ids [1]: "3014".
biodb.DEBUG[2024-06-08 16:03:36.521][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:36.523][cch$loadFileContent] Trying to load 1 files from cache: [1]: "3014".
biodb.TRACE[2024-06-08 16:03:36.525][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:36.526][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:36.528][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:36.529][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:36.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:36.532][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:36.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:36.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:36.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:36.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:36.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:36.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:36.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:36.549][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.DEBUG[2024-06-08 16:03:36.553][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:36.554][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:36.556][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014".
biodb.TRACE[2024-06-08 16:03:36.924][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=3014).
biodb.DEBUG[2024-06-08 16:03:37.294][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:37.297][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.content"
biodb.TRACE[2024-06-08 16:03:37.301][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/48c0bb0df5de824dbe83babbff8d81fe.request"
biodb.TRACE[2024-06-08 16:03:37.305][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3014.xml"
biodb.DEBUG[2024-06-08 16:03:37.307][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:37.308][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:37.309][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:37.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:37.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:37.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:37.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:37.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:37.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:37.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:37.326][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.327][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.336][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:37.338][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:37.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.340][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.342][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:37.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:37.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.347][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:37.348][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:37.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.352][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:37.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:37.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.357][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:37.359][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:37.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.361][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:37.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:37.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.368][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:37.369][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:37.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:37.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:37.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:37.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:37.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.420][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.421][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:37.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:37.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.426][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:37.427][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.430][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.431][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:37.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:37.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:37.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:37.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:37.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.447][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:37.449][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:37.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:37.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:37.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.458][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:37.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:37.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.461][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.463][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:37.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:37.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.468][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:37.469][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:37.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.473][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:37.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:37.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:37.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:37.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:37.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:37.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:37.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:37.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:37.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:37.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:37.526][self$createEntryFromContent] Accession numbers: 3014.
biodb.TRACE[2024-06-08 16:03:37.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:37.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:37.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:37.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:37.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:37.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:37.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:37.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:37.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:37.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:37.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:37.555][private$loadEntries] Creating entries from ids [1]: "7567".
biodb.DEBUG[2024-06-08 16:03:37.556][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:37.558][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7567".
biodb.TRACE[2024-06-08 16:03:37.560][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:37.561][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:37.562][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:37.564][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:37.565][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:37.566][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:37.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:37.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:37.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:37.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:37.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:37.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:37.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:37.582][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.DEBUG[2024-06-08 16:03:37.585][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:37.587][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:37.588][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567".
biodb.TRACE[2024-06-08 16:03:37.957][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7567).
biodb.DEBUG[2024-06-08 16:03:38.329][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:38.332][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.content"
biodb.TRACE[2024-06-08 16:03:38.337][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d5365299c16307afdd0b9fe7b73b123c.request"
biodb.TRACE[2024-06-08 16:03:38.341][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7567.xml"
biodb.DEBUG[2024-06-08 16:03:38.343][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:38.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:38.346][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:38.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:38.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:38.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:38.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:38.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:38.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:38.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:38.366][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.371][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.379][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:38.380][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:38.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.383][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.385][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:38.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:38.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.390][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:38.392][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:38.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.394][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:38.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:38.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.402][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:38.404][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:38.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.407][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:38.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:38.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.414][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:38.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:38.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.419][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:38.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:38.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.427][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:38.429][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:38.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.431][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.433][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:38.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:38.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.439][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:38.440][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.443][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.445][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:38.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:38.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:38.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.455][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:38.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:38.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.463][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:38.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:38.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.467][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:38.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:38.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.475][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:38.476][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:38.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.478][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.480][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:38.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:38.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.485][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:38.486][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:38.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:38.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:38.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:38.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:38.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:38.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:38.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:38.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:38.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:38.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:38.545][self$createEntryFromContent] Accession numbers: 7567.
biodb.TRACE[2024-06-08 16:03:38.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:38.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:38.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:38.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:38.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:38.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:38.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:38.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:38.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:38.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:38.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:38.575][private$loadEntries] Creating entries from ids [1]: "8021".
biodb.DEBUG[2024-06-08 16:03:38.576][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:38.578][cch$loadFileContent] Trying to load 1 files from cache: [1]: "8021".
biodb.TRACE[2024-06-08 16:03:38.580][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:38.582][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:38.584][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:38.585][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:38.591][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:38.596][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:38.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:38.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:38.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:38.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:38.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:38.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:38.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:38.613][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.DEBUG[2024-06-08 16:03:38.617][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:38.618][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:38.620][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021".
biodb.TRACE[2024-06-08 16:03:38.991][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=8021).
biodb.DEBUG[2024-06-08 16:03:39.362][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:39.365][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.content"
biodb.TRACE[2024-06-08 16:03:39.369][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6017fc384c334739eec9b216fa851a5.request"
biodb.TRACE[2024-06-08 16:03:39.373][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8021.xml"
biodb.DEBUG[2024-06-08 16:03:39.375][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:39.376][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:39.378][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:39.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:39.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:39.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:39.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:39.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:39.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:39.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:39.394][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.405][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:39.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:39.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.415][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:39.416][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:39.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.419][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:39.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:39.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.425][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:39.426][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:39.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.429][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:39.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:39.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.435][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:39.436][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:39.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:39.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:39.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.445][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:39.446][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:39.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.449][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.450][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:39.452][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.454][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:39.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.461][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:39.462][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:39.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:39.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.471][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:39.472][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:39.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.474][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:39.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.482][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:39.483][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:39.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.485][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.487][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:39.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:39.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.492][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:39.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:39.495][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.496][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.498][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:39.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:39.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:39.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:39.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:39.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:39.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:39.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:39.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:39.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:39.553][self$createEntryFromContent] Accession numbers: 8021.
biodb.TRACE[2024-06-08 16:03:39.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:39.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:39.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:39.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:39.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:39.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:39.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:39.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:39.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:39.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:39.582][private$loadEntries] Creating entries from ids [1]: "30382".
biodb.DEBUG[2024-06-08 16:03:39.583][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:39.585][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30382".
biodb.TRACE[2024-06-08 16:03:39.587][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:39.588][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:39.589][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:39.591][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:39.592][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:39.593][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:39.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:39.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:39.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:39.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:39.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:39.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:39.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:39.609][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.DEBUG[2024-06-08 16:03:39.613][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:39.614][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:39.616][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382".
biodb.TRACE[2024-06-08 16:03:39.984][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30382).
biodb.DEBUG[2024-06-08 16:03:40.356][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:40.359][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.content"
biodb.TRACE[2024-06-08 16:03:40.363][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/762ae1b4688e0a5ef1a1419b25f545f9.request"
biodb.TRACE[2024-06-08 16:03:40.366][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30382.xml"
biodb.DEBUG[2024-06-08 16:03:40.368][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:40.370][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:40.371][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:40.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:40.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:40.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:40.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:40.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:40.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:40.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:40.388][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.389][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.398][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:40.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:40.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.402][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:40.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.411][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:40.412][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:40.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.416][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:40.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:40.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.421][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:40.423][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:40.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:40.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:40.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.432][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:40.433][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:40.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.435][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:40.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:40.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:40.443][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:40.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.446][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.447][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:40.448][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.452][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:40.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.457][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:40.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:40.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.461][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:40.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:40.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.468][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:40.469][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:40.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:40.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:40.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.478][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:40.480][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:40.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.489][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:40.490][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:40.492][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.493][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:40.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:40.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:40.559][self$createEntryFromContent] Accession numbers: 30382.
biodb.TRACE[2024-06-08 16:03:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:40.575][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:40.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:40.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:40.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:40.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:40.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:40.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:40.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:40.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.602][private$selectFields]
biodb.TRACE[2024-06-08 16:03:40.603][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:40.604][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:40.605][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.610][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.615][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.616][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.618][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.622][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.624][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:40.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.640][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-06-08 16:03:40.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:40.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:40.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:40.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:40.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:40.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:40.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.665][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.666][private$selectFields]
biodb.TRACE[2024-06-08 16:03:40.667][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:40.668][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:40.669][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.671][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.672][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.674][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.676][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.677][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.679][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.681][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.682][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.688][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:40.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.705][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2024-06-08 16:03:40.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:40.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:40.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:40.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:40.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:40.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:40.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:40.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.729][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.730][private$selectFields]
biodb.TRACE[2024-06-08 16:03:40.731][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:40.732][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:40.733][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.735][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.736][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.743][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.745][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.746][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:40.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.751][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.752][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:40.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:40.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:40.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:40.769][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2024-06-08 16:03:40.770][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:40.771][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:40.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:40.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:40.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:40.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:40.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:40.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:40.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:40.790][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:40.794][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:40.796][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:40.798][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:41.171][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:41.542][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:41.544][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content"
biodb.TRACE[2024-06-08 16:03:41.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.request"
biodb.DEBUG[2024-06-08 16:03:41.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:41.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:41.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:41.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:41.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:41.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:41.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:41.568][private$loadEntries] Creating entries from ids [1]: "9710".
biodb.DEBUG[2024-06-08 16:03:41.569][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:41.571][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9710".
biodb.TRACE[2024-06-08 16:03:41.573][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:41.574][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:41.576][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:41.577][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:41.578][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:41.579][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:41.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:41.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:41.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:41.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:41.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:41.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:41.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:41.596][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.DEBUG[2024-06-08 16:03:41.599][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:41.601][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:41.602][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710".
biodb.TRACE[2024-06-08 16:03:41.971][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9710).
biodb.DEBUG[2024-06-08 16:03:42.339][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:42.341][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.content"
biodb.TRACE[2024-06-08 16:03:42.346][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b7c920ea46a15bb7175f778579142c91.request"
biodb.TRACE[2024-06-08 16:03:42.349][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9710.xml"
biodb.DEBUG[2024-06-08 16:03:42.351][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:42.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:42.353][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:42.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:42.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:42.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:42.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:42.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:42.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:42.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:42.369][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.371][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.379][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:42.381][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:42.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.383][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.384][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:42.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.389][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:42.391][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:42.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:42.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:42.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.400][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:42.412][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:42.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:42.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:42.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:42.423][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:42.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:42.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:42.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:42.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.435][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.437][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:42.438][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.442][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:42.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:42.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:42.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:42.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:42.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.458][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:42.459][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:42.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.461][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:42.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.468][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:42.470][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:42.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.473][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:42.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:42.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:42.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:42.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:42.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:42.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:42.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:42.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:42.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:42.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:42.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:42.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:42.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:42.539][self$createEntryFromContent] Accession numbers: 9710.
biodb.TRACE[2024-06-08 16:03:42.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:42.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:42.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:42.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:42.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:42.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:42.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:42.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:42.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:42.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:42.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:42.569][private$loadEntries] Creating entries from ids [1]: "65530".
biodb.DEBUG[2024-06-08 16:03:42.570][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:42.572][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65530".
biodb.TRACE[2024-06-08 16:03:42.574][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:42.575][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:42.576][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:42.578][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:42.579][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:42.580][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:42.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:42.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:42.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:42.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:42.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:42.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:42.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:42.596][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.DEBUG[2024-06-08 16:03:42.600][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:42.601][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:42.603][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530".
biodb.TRACE[2024-06-08 16:03:42.974][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65530).
biodb.DEBUG[2024-06-08 16:03:43.349][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:43.351][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.content"
biodb.TRACE[2024-06-08 16:03:43.356][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bb7ff6c0bdfa280406af23f96ee06f80.request"
biodb.TRACE[2024-06-08 16:03:43.359][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65530.xml"
biodb.DEBUG[2024-06-08 16:03:43.361][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:43.363][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:43.364][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:43.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:43.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:43.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:43.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:43.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:43.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:43.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:43.381][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.383][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.385][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.392][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:43.393][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:43.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.402][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:43.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:43.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.405][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.407][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:43.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:43.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.412][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:43.413][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:43.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:43.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:43.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.422][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:43.423][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:43.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.426][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:43.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:43.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.432][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:43.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:43.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.436][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.437][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:43.439][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.442][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:43.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:43.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:43.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:43.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:43.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.458][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:43.460][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:43.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.462][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:43.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:43.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.469][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:43.470][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:43.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.474][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:43.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:43.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:43.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:43.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:43.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:43.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:43.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:43.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:43.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:43.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:43.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:43.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:43.539][self$createEntryFromContent] Accession numbers: 65530.
biodb.TRACE[2024-06-08 16:03:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:43.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:43.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:43.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:43.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:43.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:43.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:43.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:43.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:43.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:43.568][private$loadEntries] Creating entries from ids [1]: "72338".
biodb.DEBUG[2024-06-08 16:03:43.569][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:43.571][cch$loadFileContent] Trying to load 1 files from cache: [1]: "72338".
biodb.TRACE[2024-06-08 16:03:43.578][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:43.582][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:43.584][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:43.585][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:43.586][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:43.588][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:43.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:43.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:43.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:43.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:43.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:43.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:43.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:43.604][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.DEBUG[2024-06-08 16:03:43.607][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:43.609][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:43.610][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338".
biodb.TRACE[2024-06-08 16:03:43.980][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=72338).
biodb.DEBUG[2024-06-08 16:03:44.351][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:44.354][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.content"
biodb.TRACE[2024-06-08 16:03:44.358][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e64dda61e0a44a21c5b0eb3609a4a7b.request"
biodb.TRACE[2024-06-08 16:03:44.361][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/72338.xml"
biodb.DEBUG[2024-06-08 16:03:44.363][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:44.365][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:44.366][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:44.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:44.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:44.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:44.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:44.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:44.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:44.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:44.382][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.385][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.386][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.392][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:44.394][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:44.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.396][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.398][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:44.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:44.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.403][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:44.404][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:44.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.406][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:44.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.413][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:44.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:44.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:44.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:44.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.423][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:44.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:44.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.426][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:44.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:44.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.433][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:44.434][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:44.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.436][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.438][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:44.439][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.443][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:44.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.449][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:44.450][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:44.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.452][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:44.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:44.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.459][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:44.460][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:44.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.462][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:44.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:44.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.469][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:44.470][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:44.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.473][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:44.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:44.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.479][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:44.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:44.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.484][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:44.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:44.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:44.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:44.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:44.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:44.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:44.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:44.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:44.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:44.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:44.538][self$createEntryFromContent] Accession numbers: 72338.
biodb.TRACE[2024-06-08 16:03:44.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:44.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:44.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:44.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:44.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:44.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:44.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:44.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:44.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:44.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:44.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:44.567][private$loadEntries] Creating entries from ids [1]: "77926".
biodb.DEBUG[2024-06-08 16:03:44.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:44.570][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77926".
biodb.TRACE[2024-06-08 16:03:44.572][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:44.573][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:44.575][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:44.576][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:44.577][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:44.578][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:44.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:44.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:44.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:44.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:44.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:44.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:44.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:44.595][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.DEBUG[2024-06-08 16:03:44.598][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:44.599][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:44.601][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926".
biodb.TRACE[2024-06-08 16:03:44.970][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77926).
biodb.DEBUG[2024-06-08 16:03:45.339][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:45.341][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.content"
biodb.TRACE[2024-06-08 16:03:45.346][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9ad4fcb4fcba98dcbec5ee6292352f7b.request"
biodb.TRACE[2024-06-08 16:03:45.349][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77926.xml"
biodb.DEBUG[2024-06-08 16:03:45.351][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:45.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:45.354][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:45.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:45.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:45.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:45.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:45.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:45.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:45.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:45.370][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.371][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.380][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:45.381][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:45.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.383][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.385][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:45.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:45.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.390][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:45.391][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:45.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:45.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:45.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.400][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:45.401][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:45.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:45.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:45.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:45.411][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:45.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:45.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:45.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.419][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:45.421][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:45.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.423][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.424][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:45.426][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.428][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.429][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:45.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:45.436][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:45.437][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.438][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:45.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:45.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.445][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:45.446][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:45.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.449][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:45.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:45.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.455][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:45.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:45.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.459][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.460][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:45.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:45.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:45.477][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:45.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.480][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:45.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:45.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:45.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:45.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:45.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:45.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:45.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:45.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:45.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:45.536][self$createEntryFromContent] Accession numbers: 77926.
biodb.TRACE[2024-06-08 16:03:45.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:45.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:45.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:45.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:45.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:45.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:45.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:45.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:45.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:45.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:45.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:45.564][private$loadEntries] Creating entries from ids [1]: "82369".
biodb.DEBUG[2024-06-08 16:03:45.565][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:45.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "82369".
biodb.TRACE[2024-06-08 16:03:45.569][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:45.570][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:45.571][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:45.573][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:45.574][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:45.575][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:45.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:45.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:45.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:45.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:45.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:45.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:45.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:45.592][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.DEBUG[2024-06-08 16:03:45.596][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:45.597][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:45.599][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369".
biodb.TRACE[2024-06-08 16:03:45.968][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=82369).
biodb.DEBUG[2024-06-08 16:03:46.337][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:46.340][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.content"
biodb.TRACE[2024-06-08 16:03:46.344][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/141011223a89b45316c20d1fd91b47fd.request"
biodb.TRACE[2024-06-08 16:03:46.347][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/82369.xml"
biodb.DEBUG[2024-06-08 16:03:46.349][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:46.351][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:46.352][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:46.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:46.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:46.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:46.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:46.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:46.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:46.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:46.368][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.370][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.372][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.378][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:46.380][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:46.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.382][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.384][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:46.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:46.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.389][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:46.390][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:46.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.394][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:46.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:46.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.399][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:46.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:46.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:46.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:46.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:46.411][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:46.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:46.421][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:46.422][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.423][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.425][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:46.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:46.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.430][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:46.431][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.434][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.435][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:46.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.440][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:46.441][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:46.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.444][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:46.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:46.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.450][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:46.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:46.453][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.454][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:46.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:46.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:46.462][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:46.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:46.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:46.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:46.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:46.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.474][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.476][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:46.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:46.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:46.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:46.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:46.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:46.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:46.530][self$createEntryFromContent] Accession numbers: 82369.
biodb.TRACE[2024-06-08 16:03:46.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:46.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:46.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:46.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:46.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:46.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:46.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:46.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:46.558][private$loadEntries] Creating entries from ids [1]: "90204".
biodb.DEBUG[2024-06-08 16:03:46.560][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:46.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "90204".
biodb.TRACE[2024-06-08 16:03:46.563][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:46.564][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:46.566][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:46.567][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:46.568][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:46.569][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:46.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:46.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:46.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:46.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:46.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:46.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:46.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:46.586][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.DEBUG[2024-06-08 16:03:46.589][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:46.590][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:46.592][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204".
biodb.TRACE[2024-06-08 16:03:46.961][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=90204).
biodb.DEBUG[2024-06-08 16:03:47.329][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:47.332][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.content"
biodb.TRACE[2024-06-08 16:03:47.336][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/bd50d349ae7e6e2bbccffc7e4e5f18de.request"
biodb.TRACE[2024-06-08 16:03:47.339][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/90204.xml"
biodb.DEBUG[2024-06-08 16:03:47.341][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:47.343][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:47.344][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:47.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:47.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:47.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:47.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:47.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:47.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:47.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:47.360][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.374][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.381][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:47.382][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:47.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.384][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.386][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:47.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:47.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.391][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:47.392][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:47.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.394][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:47.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:47.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:47.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:47.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.404][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:47.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:47.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:47.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.414][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:47.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:47.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:47.422][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:47.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.424][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.426][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:47.427][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.429][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.435][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:47.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:47.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:47.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.445][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:47.447][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:47.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.449][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:47.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:47.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.455][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:47.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:47.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.459][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:47.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:47.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:47.467][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:47.468][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.469][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:47.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:47.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:47.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:47.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:47.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:47.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:47.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:47.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:47.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:47.526][self$createEntryFromContent] Accession numbers: 90204.
biodb.TRACE[2024-06-08 16:03:47.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:47.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:47.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:47.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:47.543][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:47.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:47.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:47.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:47.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:47.554][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:47.555][private$loadEntries] Creating entries from ids [1]: "132793".
biodb.DEBUG[2024-06-08 16:03:47.556][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:47.558][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132793".
biodb.TRACE[2024-06-08 16:03:47.560][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:47.561][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:47.563][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:47.564][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:47.565][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:47.566][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:47.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:47.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:47.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:47.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:47.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:47.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:47.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:47.583][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.DEBUG[2024-06-08 16:03:47.587][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:47.588][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:47.590][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793".
biodb.TRACE[2024-06-08 16:03:47.960][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132793).
biodb.DEBUG[2024-06-08 16:03:48.329][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:48.332][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.content"
biodb.TRACE[2024-06-08 16:03:48.336][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a797bec3bbec3ca7a5b4b96140b735a3.request"
biodb.TRACE[2024-06-08 16:03:48.339][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132793.xml"
biodb.DEBUG[2024-06-08 16:03:48.341][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:48.343][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:48.344][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:48.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:48.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:48.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:48.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:48.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:48.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:48.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:48.361][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.362][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.363][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.365][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.371][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:48.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:48.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.376][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:48.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:48.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.381][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:48.382][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:48.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.385][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.386][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:48.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:48.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:48.393][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:48.394][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:48.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:48.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.402][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:48.403][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:48.404][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.405][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.407][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:48.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:48.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.412][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:48.413][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:48.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.417][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:48.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:48.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.422][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:48.423][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.427][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:48.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.432][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:48.433][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:48.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.435][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:48.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:48.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.442][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:48.443][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:48.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.445][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.447][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:48.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:48.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.452][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:48.453][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:48.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.456][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:48.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:48.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:48.463][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:48.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.466][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.467][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:48.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:48.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:48.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:48.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:48.529][self$createEntryFromContent] Accession numbers: 132793.
biodb.TRACE[2024-06-08 16:03:48.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:48.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:48.546][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:48.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:48.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:48.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:48.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:48.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:48.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:48.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:48.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.572][private$selectFields]
biodb.TRACE[2024-06-08 16:03:48.573][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:48.574][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:48.575][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.576][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.585][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.587][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.588][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.590][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.592][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.593][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:48.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.609][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2024-06-08 16:03:48.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:48.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:48.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:48.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:48.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:48.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:48.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:48.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.636][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.637][private$selectFields]
biodb.TRACE[2024-06-08 16:03:48.638][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:48.639][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:48.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.651][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.653][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.659][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.675][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2024-06-08 16:03:48.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:48.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:48.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:48.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:48.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:48.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:48.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:48.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.699][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.701][private$selectFields]
biodb.TRACE[2024-06-08 16:03:48.702][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:48.703][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:48.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.705][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.709][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.711][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.714][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:48.717][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.721][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.722][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:48.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:48.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:48.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:48.739][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2024-06-08 16:03:48.740][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:48.741][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:48.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:48.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:48.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:48.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:48.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:48.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:48.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:48.758][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:48.762][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:48.764][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:48.766][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:49.155][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:49.524][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:49.527][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content"
biodb.TRACE[2024-06-08 16:03:49.532][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.request"
biodb.DEBUG[2024-06-08 16:03:49.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:49.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:49.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:49.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:49.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:49.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:49.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:49.549][private$loadEntries] Creating entries from ids [1]: "131378".
biodb.DEBUG[2024-06-08 16:03:49.550][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:49.552][cch$loadFileContent] Trying to load 1 files from cache: [1]: "131378".
biodb.TRACE[2024-06-08 16:03:49.553][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:49.555][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:49.556][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:49.557][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:49.558][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:49.560][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:49.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:49.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:49.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:49.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:49.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:49.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:49.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:49.576][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.DEBUG[2024-06-08 16:03:49.580][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:49.581][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:49.582][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378".
biodb.TRACE[2024-06-08 16:03:49.958][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=131378).
biodb.DEBUG[2024-06-08 16:03:50.338][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:50.340][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.content"
biodb.TRACE[2024-06-08 16:03:50.345][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5b759b1dd2dc96585e60782e41aa0772.request"
biodb.TRACE[2024-06-08 16:03:50.348][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/131378.xml"
biodb.DEBUG[2024-06-08 16:03:50.350][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:50.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:50.353][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:50.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:50.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:50.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:50.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:50.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:50.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:50.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:50.370][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.372][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.374][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.381][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:50.382][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:50.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.384][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.386][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:50.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:50.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.391][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:50.392][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:50.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.394][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.396][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:50.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:50.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:50.402][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:50.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.404][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:50.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:50.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.411][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:50.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:50.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.414][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:50.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:50.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.421][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:50.422][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:50.423][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.424][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.426][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:50.427][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.430][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.431][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:50.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:50.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:50.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.440][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:50.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:50.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.446][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:50.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:50.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.461][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:50.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:50.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.468][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:50.470][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:50.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.473][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:50.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:50.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.478][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:50.480][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:50.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.483][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:50.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:50.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:50.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:50.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:50.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:50.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:50.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:50.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:50.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:50.537][self$createEntryFromContent] Accession numbers: 131378.
biodb.TRACE[2024-06-08 16:03:50.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:50.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:50.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:50.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:50.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:50.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:50.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:50.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:50.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:50.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:50.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:50.566][private$loadEntries] Creating entries from ids [1]: "214202".
biodb.DEBUG[2024-06-08 16:03:50.567][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:50.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "214202".
biodb.TRACE[2024-06-08 16:03:50.571][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:50.572][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:50.573][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:50.575][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:50.576][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:50.577][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:50.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:50.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:50.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:50.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:50.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:50.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:50.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:50.594][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.DEBUG[2024-06-08 16:03:50.598][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:50.599][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:50.601][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202".
biodb.TRACE[2024-06-08 16:03:50.971][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=214202).
biodb.DEBUG[2024-06-08 16:03:51.342][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:51.345][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.content"
biodb.TRACE[2024-06-08 16:03:51.350][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf9a3fb7c59af59e06fd510ceb170574.request"
biodb.TRACE[2024-06-08 16:03:51.353][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/214202.xml"
biodb.DEBUG[2024-06-08 16:03:51.355][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:51.357][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:51.358][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:51.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:51.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:51.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:51.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:51.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:51.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:51.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:51.375][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.376][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.385][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:51.387][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:51.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.389][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.391][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:51.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:51.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.396][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:51.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:51.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.399][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:51.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:51.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:51.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:51.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.410][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:51.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:51.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.416][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:51.417][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:51.418][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.420][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:51.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:51.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.426][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:51.427][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:51.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.430][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.431][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:51.433][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.435][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.436][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:51.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.442][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:51.443][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:51.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.446][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:51.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:51.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.452][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:51.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:51.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.456][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:51.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:51.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.463][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:51.464][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:51.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.467][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:51.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:51.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.473][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:51.475][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:51.476][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.477][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.479][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:51.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:51.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:51.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:51.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:51.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:51.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:51.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:51.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:51.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:51.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:51.534][self$createEntryFromContent] Accession numbers: 214202.
biodb.TRACE[2024-06-08 16:03:51.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:51.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:51.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:51.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:51.551][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:51.555][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:51.556][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:51.559][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:51.932][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:52.300][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:52.302][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content"
biodb.TRACE[2024-06-08 16:03:52.307][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.request"
biodb.DEBUG[2024-06-08 16:03:52.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:52.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:52.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:52.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:52.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:52.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:52.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:52.323][private$loadEntries] Creating entries from ids [1]: "51836".
biodb.DEBUG[2024-06-08 16:03:52.325][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:52.327][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51836".
biodb.TRACE[2024-06-08 16:03:52.328][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:52.329][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:52.331][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:52.332][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:52.333][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:52.334][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:52.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:52.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:52.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:52.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:52.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:52.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:52.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:52.351][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.DEBUG[2024-06-08 16:03:52.366][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:52.368][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:52.369][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836".
biodb.TRACE[2024-06-08 16:03:52.737][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51836).
biodb.DEBUG[2024-06-08 16:03:53.108][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:53.111][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.content"
biodb.TRACE[2024-06-08 16:03:53.115][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1fe2079ad59bca4bc82b2cd14ed8e8a1.request"
biodb.TRACE[2024-06-08 16:03:53.118][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51836.xml"
biodb.DEBUG[2024-06-08 16:03:53.120][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:53.121][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:53.123][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:53.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:53.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:53.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:53.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:53.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:53.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:53.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:53.138][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.140][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.142][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.149][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:53.150][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:53.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.152][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.154][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:53.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:53.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.159][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:53.160][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:53.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.164][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:53.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:53.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.169][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:53.170][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:53.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.172][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:53.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:53.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.179][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:53.180][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:53.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:53.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:53.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.189][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:53.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:53.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.193][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.194][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:53.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:53.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.199][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:53.201][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.204][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:53.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.209][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:53.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:53.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:53.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:53.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.219][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:53.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:53.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:53.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:53.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.230][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:53.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:53.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.235][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:53.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:53.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.240][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:53.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:53.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.245][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:53.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:53.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:53.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:53.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:53.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:53.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:53.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:53.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:53.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:53.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:53.299][self$createEntryFromContent] Accession numbers: 51836.
biodb.TRACE[2024-06-08 16:03:53.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:53.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:53.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:53.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:53.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:53.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:53.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:53.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:53.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:53.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:53.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:53.328][private$loadEntries] Creating entries from ids [1]: "51837".
biodb.DEBUG[2024-06-08 16:03:53.330][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:53.332][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51837".
biodb.TRACE[2024-06-08 16:03:53.333][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:53.334][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:53.336][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:53.337][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:53.338][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:53.339][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:53.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:53.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:53.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:53.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:53.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:53.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:53.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:53.356][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.DEBUG[2024-06-08 16:03:53.359][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:53.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:53.362][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837".
biodb.TRACE[2024-06-08 16:03:53.736][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51837).
biodb.DEBUG[2024-06-08 16:03:54.104][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:54.107][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.content"
biodb.TRACE[2024-06-08 16:03:54.111][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1588f004fb5de8667ae1af7433b2932e.request"
biodb.TRACE[2024-06-08 16:03:54.114][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51837.xml"
biodb.DEBUG[2024-06-08 16:03:54.116][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:54.118][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:54.120][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:54.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:54.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:54.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:54.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:54.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:54.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:54.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:54.136][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.138][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.140][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.147][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:54.148][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:54.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:54.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:54.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.157][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:54.159][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:54.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.161][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.163][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:54.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:54.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.168][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:54.169][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:54.170][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.171][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.173][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:54.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:54.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.178][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:54.179][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:54.181][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:54.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:54.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.189][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:54.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:54.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.193][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.194][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:54.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:54.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.200][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:54.201][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.205][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:54.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.210][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:54.211][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:54.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:54.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:54.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.220][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:54.221][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:54.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.224][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:54.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:54.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.231][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:54.232][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:54.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.234][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.236][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:54.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:54.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.241][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:54.242][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:54.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.245][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.246][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:54.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:54.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:54.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:54.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:54.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:54.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:54.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:54.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:54.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:54.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:54.314][self$createEntryFromContent] Accession numbers: 51837.
biodb.TRACE[2024-06-08 16:03:54.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:54.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:54.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:54.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:54.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:54.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:54.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:54.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:54.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:54.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:54.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:54.343][private$loadEntries] Creating entries from ids [1]: "132205".
biodb.DEBUG[2024-06-08 16:03:54.345][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:54.347][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132205".
biodb.TRACE[2024-06-08 16:03:54.348][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:54.350][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:54.351][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:54.352][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:54.353][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:54.355][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:54.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:54.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:54.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:54.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:54.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:54.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:54.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:54.371][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.DEBUG[2024-06-08 16:03:54.374][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:54.375][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:54.377][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205".
biodb.TRACE[2024-06-08 16:03:54.749][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132205).
biodb.DEBUG[2024-06-08 16:03:55.117][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:55.120][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.content"
biodb.TRACE[2024-06-08 16:03:55.124][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bfa2ac1d845d7db5b781e9a39528bb3.request"
biodb.TRACE[2024-06-08 16:03:55.127][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132205.xml"
biodb.DEBUG[2024-06-08 16:03:55.129][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:55.131][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:55.132][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:55.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.149][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.150][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.152][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.159][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:55.160][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:55.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.163][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.164][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:55.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:55.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.169][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:55.171][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:55.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.173][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.175][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:55.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:55.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:55.181][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:55.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.184][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:55.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:55.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.190][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:55.191][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:55.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:55.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:55.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:55.202][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:55.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.206][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:55.207][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.209][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.211][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:55.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.216][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:55.217][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:55.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:55.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:55.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.226][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:55.227][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:55.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.230][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.232][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:55.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:55.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.237][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:55.238][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:55.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.240][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.242][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:55.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:55.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.247][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:55.248][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:55.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.252][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:55.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:55.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:55.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:55.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.308][self$createEntryFromContent] Accession numbers: 132205.
biodb.TRACE[2024-06-08 16:03:55.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.325][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:55.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.352][private$selectFields]
biodb.TRACE[2024-06-08 16:03:55.353][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:55.354][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:55.356][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.361][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.362][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.363][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.366][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.368][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.369][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.374][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:55.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.392][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2024-06-08 16:03:55.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.417][private$selectFields]
biodb.TRACE[2024-06-08 16:03:55.418][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:55.420][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:55.429][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.431][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.432][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.435][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.442][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.443][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.444][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.447][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.448][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:55.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.464][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2024-06-08 16:03:55.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.488][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.489][private$selectFields]
biodb.TRACE[2024-06-08 16:03:55.491][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:55.492][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:55.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.498][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.503][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.504][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.505][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.506][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.508][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.510][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.511][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:55.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.528][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2024-06-08 16:03:55.529][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:55.530][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:55.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:55.572][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:55.576][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:55.578][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:03:55.579][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:55.581][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:03:55.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.595][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.613][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:55.617][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:55.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:03:55.621][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:55.623][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:03:55.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.683][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:55.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.710][private$selectFields]
biodb.TRACE[2024-06-08 16:03:55.711][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:55.712][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:55.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.718][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.719][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.723][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.725][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.732][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:55.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.748][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-08 16:03:55.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.773][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.774][private$selectFields]
biodb.TRACE[2024-06-08 16:03:55.775][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:55.777][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:55.778][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.782][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.783][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.790][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.793][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.794][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.796][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:55.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.813][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:03:55.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.838][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.839][private$selectFields]
biodb.TRACE[2024-06-08 16:03:55.841][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:55.842][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:55.843][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.844][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.846][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.848][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.849][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.862][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:55.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.868][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:55.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:55.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.885][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-08 16:03:55.886][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:55.887][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:55.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:55.905][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:55.909][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:55.911][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-06-08 16:03:55.912][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:55.914][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-06-08 16:03:55.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:55.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:55.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:55.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:55.972][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:55.977][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:55.978][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-06-08 16:03:55.980][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:55.982][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-06-08 16:03:55.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:55.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:55.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:55.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:55.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:55.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:55.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:55.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.073][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:56.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.100][private$selectFields]
biodb.TRACE[2024-06-08 16:03:56.101][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:56.102][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:56.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.105][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.106][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.115][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.116][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.119][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.121][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.122][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:56.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.129][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.140][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:03:56.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.165][private$selectFields]
biodb.TRACE[2024-06-08 16:03:56.166][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:56.168][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:56.169][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.170][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.171][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.181][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.188][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:56.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.204][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:03:56.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.230][private$selectFields]
biodb.TRACE[2024-06-08 16:03:56.231][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:56.232][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:56.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.238][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.246][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.248][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.252][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:56.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.268][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:03:56.270][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:56.271][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:56.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:56.294][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:56.298][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:56.300][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-06-08 16:03:56.301][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:56.303][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-06-08 16:03:56.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.532][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:56.536][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:03:56.538][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-06-08 16:03:56.539][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:03:56.541][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-06-08 16:03:56.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:56.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:56.627][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:03:56.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.652][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.653][private$selectFields]
biodb.TRACE[2024-06-08 16:03:56.654][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:56.655][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:56.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.658][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.659][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.664][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.667][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.669][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.670][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.673][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.675][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:56.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.691][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:03:56.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.722][private$selectFields]
biodb.TRACE[2024-06-08 16:03:56.723][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:56.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:56.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.729][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.730][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.735][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.738][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.739][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.741][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.742][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.743][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:56.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.760][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-06-08 16:03:56.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:56.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.783][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.785][private$selectFields]
biodb.TRACE[2024-06-08 16:03:56.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:03:56.787][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:03:56.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.793][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.800][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:03:56.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.805][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.806][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:03:56.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:56.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:56.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:56.822][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-06-08 16:03:56.823][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:03:56.824][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:03:56.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:56.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:56.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:56.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:56.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:56.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:56.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:56.865][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:03:56.870][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:56.871][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:56.873][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:03:57.243][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:03:57.616][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:57.618][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content"
biodb.TRACE[2024-06-08 16:03:57.623][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.request"
biodb.DEBUG[2024-06-08 16:03:57.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:57.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:57.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:57.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:57.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:57.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:57.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:57.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:57.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:57.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:57.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:57.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:57.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:57.655][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:57.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:57.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:57.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:57.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:57.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:57.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:57.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:57.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:57.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:57.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:57.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:57.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:57.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:57.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:57.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:57.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:57.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:57.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:57.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:57.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:57.698][private$loadEntries] Creating entries from ids [1]: "28243".
biodb.DEBUG[2024-06-08 16:03:57.699][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:57.701][cch$loadFileContent] Trying to load 1 files from cache: [1]: "28243".
biodb.TRACE[2024-06-08 16:03:57.703][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:57.704][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:57.705][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:57.707][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:57.708][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:57.709][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:57.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:57.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:57.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:57.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:57.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:57.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:57.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:57.733][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.DEBUG[2024-06-08 16:03:57.737][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:57.738][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:57.740][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243".
biodb.TRACE[2024-06-08 16:03:58.114][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=28243).
biodb.DEBUG[2024-06-08 16:03:58.486][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:58.489][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.content"
biodb.TRACE[2024-06-08 16:03:58.494][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/177c3a227615d232b537605885883911.request"
biodb.TRACE[2024-06-08 16:03:58.498][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/28243.xml"
biodb.DEBUG[2024-06-08 16:03:58.500][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:58.501][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:58.503][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:58.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:58.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:58.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:58.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:58.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:58.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:58.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:58.520][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.521][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.523][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.530][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:58.531][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:58.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:58.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:58.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.540][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:58.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:58.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.544][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:58.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:58.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:58.552][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:58.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.554][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:58.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:58.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.561][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:58.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:58.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:58.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:58.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.572][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:58.573][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:58.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.575][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.577][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:58.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:58.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.582][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:58.583][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.586][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.587][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:58.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:58.593][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:58.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:58.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:58.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.602][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:58.604][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:58.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:58.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:58.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:58.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:58.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.630][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:58.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:58.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.635][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:58.636][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:58.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.639][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.640][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:58.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:58.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:58.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:58.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:58.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:58.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:58.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:58.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:58.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:58.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:58.695][self$createEntryFromContent] Accession numbers: 28243.
biodb.TRACE[2024-06-08 16:03:58.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:58.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:58.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:58.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:58.719][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:58.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:58.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:58.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:58.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:58.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:58.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:58.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:58.738][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:58.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:58.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:58.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:58.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:58.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:58.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:58.752][private$loadEntries] Creating entries from ids [1]: "70786".
biodb.DEBUG[2024-06-08 16:03:58.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:58.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70786".
biodb.TRACE[2024-06-08 16:03:58.757][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:58.758][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:58.759][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:58.761][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:58.762][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:58.763][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:58.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:58.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:58.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:58.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:58.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:58.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:58.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:58.780][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.DEBUG[2024-06-08 16:03:58.783][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:58.785][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:58.786][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786".
biodb.TRACE[2024-06-08 16:03:59.156][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70786).
biodb.DEBUG[2024-06-08 16:03:59.538][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:03:59.540][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.content"
biodb.TRACE[2024-06-08 16:03:59.545][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ea24f2a708fc4a90f6eff28b49d993c4.request"
biodb.TRACE[2024-06-08 16:03:59.548][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70786.xml"
biodb.DEBUG[2024-06-08 16:03:59.551][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:03:59.552][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:03:59.554][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:03:59.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:59.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:59.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:59.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:59.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:59.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:59.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:03:59.571][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.572][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.574][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.581][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:59.582][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:59.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.585][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:03:59.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:03:59.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.591][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:59.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:59.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:03:59.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:03:59.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.602][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:59.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:59.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:03:59.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:03:59.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.612][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:59.614][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:59.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:03:59.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:03:59.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:59.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:03:59.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.628][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:59.629][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.632][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.633][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:03:59.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:59.640][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:59.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:59.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:03:59.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.649][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:59.650][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:59.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.652][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.654][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:03:59.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:03:59.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.659][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:59.661][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:59.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.663][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.665][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:03:59.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:03:59.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.670][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:59.671][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:59.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.673][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.675][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:03:59.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:03:59.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:59.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:59.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:59.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:59.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:03:59.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:03:59.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:03:59.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:03:59.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:59.732][self$createEntryFromContent] Accession numbers: 70786.
biodb.TRACE[2024-06-08 16:03:59.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:03:59.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:03:59.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:03:59.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:03:59.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:59.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:59.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:59.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:59.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:59.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:59.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:59.763][private$loadEntries] Creating entries from ids [1]: "78144".
biodb.DEBUG[2024-06-08 16:03:59.764][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:03:59.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78144".
biodb.TRACE[2024-06-08 16:03:59.768][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:03:59.769][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:03:59.771][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:03:59.772][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:03:59.773][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:03:59.774][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:03:59.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:03:59.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:03:59.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:03:59.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:03:59.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:03:59.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:03:59.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:03:59.791][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.DEBUG[2024-06-08 16:03:59.794][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:03:59.796][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:03:59.803][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144".
biodb.TRACE[2024-06-08 16:04:00.175][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78144).
biodb.DEBUG[2024-06-08 16:04:00.545][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:00.547][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.content"
biodb.TRACE[2024-06-08 16:04:00.552][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ede5a640bd42c7611e16282ef185b74.request"
biodb.TRACE[2024-06-08 16:04:00.555][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78144.xml"
biodb.DEBUG[2024-06-08 16:04:00.557][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:00.558][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:00.560][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:00.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:00.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:00.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:00.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:00.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:00.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:00.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:00.576][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.577][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.586][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:00.587][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:00.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:00.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:00.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.596][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:00.597][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:00.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.601][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:00.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:00.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.606][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:00.607][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:00.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.610][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.611][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:00.613][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:00.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.615][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.616][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:00.618][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:00.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.620][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.621][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:00.623][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.627][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:00.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.632][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:00.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:00.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.635][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:00.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:00.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.642][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:00.643][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:00.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.647][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:00.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:00.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.652][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:00.653][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:00.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.656][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.657][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:00.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:00.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.662][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:00.664][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:00.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.668][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:00.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:00.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:00.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:00.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:00.723][self$createEntryFromContent] Accession numbers: 78144.
biodb.TRACE[2024-06-08 16:04:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:00.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:00.739][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:00.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:00.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:00.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:00.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:00.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:00.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:00.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:00.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.766][private$selectFields]
biodb.TRACE[2024-06-08 16:04:00.767][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:00.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:00.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.776][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.779][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.782][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.787][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.788][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:00.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.805][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:04:00.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:00.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:00.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:00.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:00.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:00.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:00.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:00.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.831][private$selectFields]
biodb.TRACE[2024-06-08 16:04:00.832][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:00.833][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:00.834][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.837][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.841][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.847][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.852][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.853][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:00.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.870][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2024-06-08 16:04:00.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:00.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:00.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:00.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:00.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:00.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:00.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:00.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.896][private$selectFields]
biodb.TRACE[2024-06-08 16:04:00.897][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:00.899][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:00.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.902][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.903][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.905][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.909][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.912][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:00.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.914][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.918][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:00.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:00.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:00.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:00.935][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2024-06-08 16:04:00.936][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:00.937][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:00.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:00.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:00.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:00.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:00.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:00.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:00.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:00.963][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:00.968][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:00.969][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:00.971][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:01.346][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:01.808][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:01.811][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content"
biodb.TRACE[2024-06-08 16:04:01.816][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.request"
biodb.DEBUG[2024-06-08 16:04:01.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:01.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:01.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:01.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:01.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:01.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:01.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:01.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:01.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:01.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:01.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:01.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:01.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:01.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:01.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:01.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:01.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:01.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:01.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:01.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:01.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:01.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:01.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:01.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:01.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:01.905][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:01.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:01.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:01.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:01.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:01.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:01.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:01.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:01.919][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:01.930][private$selectFields]
biodb.TRACE[2024-06-08 16:04:01.932][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:01.933][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:01.934][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:01.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.942][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.944][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:01.946][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:01.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.949][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.951][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.952][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:01.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.968][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:04:01.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:01.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:01.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:01.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:01.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:01.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:01.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:01.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:01.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:01.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:01.993][private$selectFields]
biodb.TRACE[2024-06-08 16:04:01.994][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:01.995][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:01.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:01.998][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:01.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.008][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:02.009][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:02.010][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.013][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.015][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:02.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.031][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:04:02.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:02.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:02.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:02.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:02.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:02.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:02.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:02.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.055][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:02.056][private$selectFields]
biodb.TRACE[2024-06-08 16:04:02.057][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:02.058][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:02.059][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:02.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.064][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.065][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:02.071][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:02.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.074][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.076][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.077][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:02.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:02.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.093][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:04:02.095][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:02.096][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:02.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:02.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:02.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:02.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:02.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:02.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:02.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:02.113][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:02.117][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:02.118][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:02.121][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:02.491][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:02.862][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:02.865][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content"
biodb.TRACE[2024-06-08 16:04:02.870][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.request"
biodb.DEBUG[2024-06-08 16:04:02.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:02.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:02.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:02.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:02.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:02.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:02.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:02.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:02.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:02.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:02.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:02.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:02.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:02.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:02.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:02.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:02.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:02.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:02.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:02.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:02.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:02.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:02.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:02.915][private$loadEntries] Creating entries from ids [1]: "47739".
biodb.DEBUG[2024-06-08 16:04:02.916][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:02.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "47739".
biodb.TRACE[2024-06-08 16:04:02.920][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:02.921][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:02.923][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:02.924][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:02.925][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:02.926][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:02.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:02.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:02.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:02.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:02.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:02.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:02.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:02.954][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.DEBUG[2024-06-08 16:04:02.957][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:02.958][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:02.960][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739".
biodb.TRACE[2024-06-08 16:04:03.328][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=47739).
biodb.DEBUG[2024-06-08 16:04:03.697][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:03.700][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.content"
biodb.TRACE[2024-06-08 16:04:03.704][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0dc9c92acc9df5971b3177a6daad90f3.request"
biodb.TRACE[2024-06-08 16:04:03.708][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/47739.xml"
biodb.DEBUG[2024-06-08 16:04:03.709][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:03.711][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:03.712][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:03.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:03.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:03.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:03.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:03.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:03.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:03.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:03.729][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.730][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.733][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.739][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:03.740][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:03.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.743][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.744][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:03.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:03.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.749][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:03.751][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:03.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.754][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:03.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:03.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.760][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:03.761][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:03.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:03.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:03.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:03.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:03.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:03.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:03.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.780][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:03.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:03.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.784][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.786][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:03.787][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.790][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.791][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:03.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.796][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:03.798][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:03.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.800][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:03.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:03.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.807][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:03.808][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:03.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.810][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:03.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:03.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.817][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:03.818][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:03.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.821][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:03.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:03.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:03.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:03.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:03.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:03.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:03.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:03.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:03.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:03.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:03.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:03.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:03.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:03.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:03.887][self$createEntryFromContent] Accession numbers: 47739.
biodb.TRACE[2024-06-08 16:04:03.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:03.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:03.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:03.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:03.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:03.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:03.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:03.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:03.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:03.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:03.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:03.916][private$loadEntries] Creating entries from ids [1]: "51744".
biodb.DEBUG[2024-06-08 16:04:03.917][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:03.919][cch$loadFileContent] Trying to load 1 files from cache: [1]: "51744".
biodb.TRACE[2024-06-08 16:04:03.920][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:03.922][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:03.923][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:03.924][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:03.925][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:03.927][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:03.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:03.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:03.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:03.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:03.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:03.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:03.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:03.943][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.DEBUG[2024-06-08 16:04:03.946][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:03.947][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:03.949][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744".
biodb.TRACE[2024-06-08 16:04:04.319][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=51744).
biodb.DEBUG[2024-06-08 16:04:04.689][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:04.691][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.content"
biodb.TRACE[2024-06-08 16:04:04.753][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34d89a621633962f5a6b9b09f1ef84ed.request"
biodb.TRACE[2024-06-08 16:04:04.756][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/51744.xml"
biodb.DEBUG[2024-06-08 16:04:04.760][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:04.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:04.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:04.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:04.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:04.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:04.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:04.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:04.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:04.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:04.785][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.787][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.788][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.789][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.796][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:04.798][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:04.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.800][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.802][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:04.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:04.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.807][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:04.808][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:04.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.811][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.812][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:04.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:04.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.817][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:04.819][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:04.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.821][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:04.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:04.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.828][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:04.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:04.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:04.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:04.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:04.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:04.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.842][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.843][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:04.845][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.847][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.849][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:04.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.854][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:04.855][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:04.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.857][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:04.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:04.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.864][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:04.866][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:04.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.868][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:04.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:04.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.875][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:04.876][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:04.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.879][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.880][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:04.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:04.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.886][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:04.887][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:04.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.890][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.891][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:04.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:04.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:04.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:04.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:04.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:04.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:04.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:04.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:04.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:04.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:04.960][self$createEntryFromContent] Accession numbers: 51744.
biodb.TRACE[2024-06-08 16:04:04.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:04.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:04.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:04.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:04.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:04.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:04.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:04.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:04.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:04.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:04.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:04.989][private$loadEntries] Creating entries from ids [1]: "64473".
biodb.DEBUG[2024-06-08 16:04:04.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:04.992][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64473".
biodb.TRACE[2024-06-08 16:04:04.994][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:04.995][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:04.997][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:04.998][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:04.999][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:05.000][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:05.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:05.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:05.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:05.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:05.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:05.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:05.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:05.017][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.DEBUG[2024-06-08 16:04:05.021][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:05.022][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:05.024][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473".
biodb.TRACE[2024-06-08 16:04:05.394][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=64473).
biodb.DEBUG[2024-06-08 16:04:05.764][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:05.766][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.content"
biodb.TRACE[2024-06-08 16:04:05.771][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0bc75e6e381d0b772364b3d17c4c0f5e.request"
biodb.TRACE[2024-06-08 16:04:05.774][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64473.xml"
biodb.DEBUG[2024-06-08 16:04:05.776][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:05.778][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:05.779][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:05.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:05.782][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:05.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:05.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:05.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:05.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:05.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:05.796][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.798][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.799][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.808][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:05.809][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:05.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.811][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.813][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:05.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:05.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.818][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:05.820][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:05.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.822][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.823][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:05.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:05.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.829][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:05.830][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:05.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.832][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.834][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:05.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:05.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.839][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:05.840][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:05.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.843][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:05.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:05.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.849][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:05.851][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:05.852][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.853][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.855][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:05.856][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.858][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.860][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:05.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.865][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:05.866][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:05.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.869][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:05.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:05.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.875][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:05.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:05.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.879][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:05.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:05.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.886][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:05.887][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:05.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.890][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:05.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:05.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.897][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:05.898][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:05.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.900][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.902][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:05.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:05.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:05.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:05.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:05.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:05.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:05.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:05.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:05.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:05.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:05.959][self$createEntryFromContent] Accession numbers: 64473.
biodb.TRACE[2024-06-08 16:04:05.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:05.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:05.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:05.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:05.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:05.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:05.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:05.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:05.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:05.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:05.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:05.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:06.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:06.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:06.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:06.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:06.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:06.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:06.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:06.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:06.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:06.019][private$loadEntries] Creating entries from ids [1]: "75244".
biodb.DEBUG[2024-06-08 16:04:06.020][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:06.022][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75244".
biodb.TRACE[2024-06-08 16:04:06.024][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:06.025][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:06.026][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:06.028][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:06.029][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:06.030][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:06.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:06.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:06.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:06.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:06.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:06.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:06.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:06.047][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.DEBUG[2024-06-08 16:04:06.050][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:06.052][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:06.053][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244".
biodb.TRACE[2024-06-08 16:04:06.423][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75244).
biodb.DEBUG[2024-06-08 16:04:06.792][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:06.795][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.content"
biodb.TRACE[2024-06-08 16:04:06.799][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cae81bf9939177869251c540dee6df85.request"
biodb.TRACE[2024-06-08 16:04:06.803][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75244.xml"
biodb.DEBUG[2024-06-08 16:04:06.805][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:06.807][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:06.820][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:06.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:06.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:06.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:06.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:06.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:06.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:06.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:06.837][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.841][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.848][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:06.849][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:06.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.853][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:06.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:06.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.858][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:06.859][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:06.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.863][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:06.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:06.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.868][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:06.870][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:06.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:06.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:06.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:06.880][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:06.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:06.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:06.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:06.890][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:06.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.894][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:06.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:06.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.899][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:06.900][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:06.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.904][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:06.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:06.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.910][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:06.911][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:06.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:06.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:06.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.920][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:06.921][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:06.923][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.924][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.925][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:06.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:06.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.931][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:06.932][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:06.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.934][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.936][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:06.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:06.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:06.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:06.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.945][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.947][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:06.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:06.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:06.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:06.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:06.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:06.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:06.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:06.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:06.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:06.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:06.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:06.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:07.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:07.003][self$createEntryFromContent] Accession numbers: 75244.
biodb.TRACE[2024-06-08 16:04:07.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:07.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:07.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:07.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:07.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:07.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:07.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:07.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:07.033][private$loadEntries] Creating entries from ids [1]: "75311".
biodb.DEBUG[2024-06-08 16:04:07.034][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:07.036][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75311".
biodb.TRACE[2024-06-08 16:04:07.038][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:07.039][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:07.040][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:07.042][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:07.043][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:07.044][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:07.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:07.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:07.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:07.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:07.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:07.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:07.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:07.061][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.DEBUG[2024-06-08 16:04:07.065][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:07.066][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:07.068][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311".
biodb.TRACE[2024-06-08 16:04:07.438][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75311).
biodb.DEBUG[2024-06-08 16:04:07.809][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:07.812][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.content"
biodb.TRACE[2024-06-08 16:04:07.816][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4e5c0f0d646c796bdaff17cc90a3658d.request"
biodb.TRACE[2024-06-08 16:04:07.819][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75311.xml"
biodb.DEBUG[2024-06-08 16:04:07.821][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:07.823][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:07.824][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:07.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:07.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:07.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:07.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:07.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:07.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:07.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:07.841][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:07.842][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:07.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:07.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:07.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.851][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:07.852][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:07.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:07.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:07.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.862][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:07.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:07.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.866][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:07.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:07.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:07.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:07.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.876][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:07.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:07.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:07.884][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:07.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.886][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:07.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.893][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:07.894][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:07.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.897][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.898][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:07.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:07.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.904][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:07.905][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.907][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.909][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:07.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:07.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.914][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:07.916][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:07.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:07.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:07.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.924][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:07.926][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:07.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:07.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:07.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.935][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:07.936][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:07.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.940][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:07.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:07.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.945][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:07.946][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:07.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.949][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.950][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:07.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:07.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:07.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:07.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:07.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:07.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:07.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:07.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:07.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:07.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:07.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:07.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:07.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:07.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:07.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:08.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:08.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:08.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:08.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:08.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:08.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:08.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:08.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:08.019][self$createEntryFromContent] Accession numbers: 75311.
biodb.TRACE[2024-06-08 16:04:08.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:08.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:08.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:08.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:08.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:08.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:08.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:08.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:08.048][private$loadEntries] Creating entries from ids [1]: "75350".
biodb.DEBUG[2024-06-08 16:04:08.049][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:08.051][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75350".
biodb.TRACE[2024-06-08 16:04:08.053][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:08.054][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:08.056][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:08.057][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:08.058][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:08.059][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:08.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:08.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:08.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:08.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:08.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:08.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:08.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:08.076][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.DEBUG[2024-06-08 16:04:08.079][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:08.081][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:08.082][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350".
biodb.TRACE[2024-06-08 16:04:08.452][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75350).
biodb.DEBUG[2024-06-08 16:04:08.822][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:08.824][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.content"
biodb.TRACE[2024-06-08 16:04:08.829][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37625fe42e340de84bdcc226ef73c285.request"
biodb.TRACE[2024-06-08 16:04:08.914][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75350.xml"
biodb.DEBUG[2024-06-08 16:04:08.916][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:08.918][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:08.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:08.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:08.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:08.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:08.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:08.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:08.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:08.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:08.936][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:08.938][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:08.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.940][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.947][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:08.948][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:08.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.950][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:08.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:08.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.957][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:08.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:08.959][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.961][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:08.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:08.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.967][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:08.969][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:08.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.971][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:08.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:08.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.977][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:08.979][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:08.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.981][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:08.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:08.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.988][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:08.989][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:08.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.992][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.993][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:08.995][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:08.996][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:08.997][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:08.998][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:09.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:09.005][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:09.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.007][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:09.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:09.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.014][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:09.015][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:09.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:09.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:09.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.025][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:09.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:09.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.029][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:09.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:09.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.036][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:09.037][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:09.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:09.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:09.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:09.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:09.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:09.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:09.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:09.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:09.097][self$createEntryFromContent] Accession numbers: 75350.
biodb.TRACE[2024-06-08 16:04:09.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:09.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:09.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:09.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:09.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:09.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:09.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:09.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:09.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:09.127][private$loadEntries] Creating entries from ids [1]: "87236".
biodb.DEBUG[2024-06-08 16:04:09.129][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:09.131][cch$loadFileContent] Trying to load 1 files from cache: [1]: "87236".
biodb.TRACE[2024-06-08 16:04:09.132][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:09.133][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:09.135][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:09.136][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:09.137][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:09.138][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:09.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:09.143][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:09.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:09.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:09.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:09.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:09.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:09.155][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.DEBUG[2024-06-08 16:04:09.159][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:09.160][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:09.162][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236".
biodb.TRACE[2024-06-08 16:04:09.533][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=87236).
biodb.DEBUG[2024-06-08 16:04:09.903][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:09.906][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.content"
biodb.TRACE[2024-06-08 16:04:09.911][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/668dc6e1fe28fb2b9645ffb56917cb44.request"
biodb.TRACE[2024-06-08 16:04:09.914][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/87236.xml"
biodb.DEBUG[2024-06-08 16:04:09.916][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:09.917][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:09.919][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:09.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:09.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:09.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:09.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:09.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:09.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:09.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:09.936][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.937][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.940][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:09.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:09.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.947][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:09.948][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:09.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.950][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.952][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:09.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:09.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.957][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:09.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:09.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.961][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.962][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:09.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.973][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:09.980][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:09.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.983][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:09.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:09.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.990][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:09.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:09.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.994][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:09.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:09.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:09.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:09.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.000][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:10.002][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:10.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.006][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:10.007][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.009][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:10.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:10.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:10.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.027][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:10.028][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:10.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.031][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:10.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:10.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.038][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:10.039][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:10.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.041][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.043][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:10.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:10.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.048][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:10.049][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:10.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:10.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:10.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:10.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:10.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:10.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:10.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:10.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:10.111][self$createEntryFromContent] Accession numbers: 87236.
biodb.TRACE[2024-06-08 16:04:10.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:10.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:10.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:10.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:10.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:10.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:10.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:10.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:10.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:10.142][private$loadEntries] Creating entries from ids [1]: "132193".
biodb.DEBUG[2024-06-08 16:04:10.143][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:10.145][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132193".
biodb.TRACE[2024-06-08 16:04:10.147][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:10.148][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:10.150][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:10.151][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:10.152][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:10.154][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:10.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:10.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:10.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:10.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:10.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:10.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:10.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:10.171][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.DEBUG[2024-06-08 16:04:10.175][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:10.176][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:10.178][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193".
biodb.TRACE[2024-06-08 16:04:10.546][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132193).
biodb.DEBUG[2024-06-08 16:04:10.915][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:10.918][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.content"
biodb.TRACE[2024-06-08 16:04:10.923][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/485d54e768e8b3a26016a2841d39a83c.request"
biodb.TRACE[2024-06-08 16:04:10.926][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132193.xml"
biodb.DEBUG[2024-06-08 16:04:10.929][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:10.930][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:10.932][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:10.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:10.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:10.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:10.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:10.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:10.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:10.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:10.949][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.950][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.953][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:10.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:10.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.959][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:10.961][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:10.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.963][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:10.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:10.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.970][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:10.971][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:10.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.973][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.975][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:10.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:10.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.980][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:10.981][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:10.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.984][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:10.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:10.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.990][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:10.991][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:10.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.994][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:10.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:10.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:10.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:10.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.001][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:11.002][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:11.003][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.006][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:11.007][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.009][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:11.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:11.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:11.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:11.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:11.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.026][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:11.027][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:11.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:11.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:11.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.036][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:11.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:11.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.042][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.047][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:11.048][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:11.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:11.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:11.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:11.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:11.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:11.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:11.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:11.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:11.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:11.107][self$createEntryFromContent] Accession numbers: 132193.
biodb.TRACE[2024-06-08 16:04:11.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:11.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:11.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:11.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:11.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:11.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:11.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:11.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:11.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:11.143][private$loadEntries] Creating entries from ids [1]: "146002".
biodb.DEBUG[2024-06-08 16:04:11.147][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:11.149][cch$loadFileContent] Trying to load 1 files from cache: [1]: "146002".
biodb.TRACE[2024-06-08 16:04:11.151][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:11.153][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:11.154][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:11.155][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:11.157][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:11.158][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:11.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:11.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:11.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:11.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:11.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:11.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:11.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:11.175][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.DEBUG[2024-06-08 16:04:11.178][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:11.179][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:11.181][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002".
biodb.TRACE[2024-06-08 16:04:11.550][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=146002).
biodb.DEBUG[2024-06-08 16:04:11.921][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:11.923][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.content"
biodb.TRACE[2024-06-08 16:04:11.944][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f6f6aad2df3f38cd332b2e82fd62eca2.request"
biodb.TRACE[2024-06-08 16:04:11.948][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/146002.xml"
biodb.DEBUG[2024-06-08 16:04:11.950][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:11.952][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:11.953][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:11.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:11.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:11.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:11.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:11.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:11.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:11.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:11.971][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.972][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:11.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:11.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.981][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:11.983][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:11.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.985][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:11.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:11.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.991][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:11.993][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:11.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:11.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:11.997][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:12.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:12.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.038][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:12.040][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:12.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.042][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:12.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:12.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.049][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:12.050][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:12.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.053][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:12.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:12.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:12.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:12.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.065][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:12.066][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.070][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:12.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.076][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:12.077][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:12.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:12.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:12.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.087][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:12.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:12.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.090][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:12.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:12.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.098][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:12.099][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:12.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.102][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.103][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:12.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:12.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.109][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:12.111][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:12.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.115][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:12.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:12.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:12.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:12.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:12.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:12.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:12.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:12.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:12.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:12.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:12.172][self$createEntryFromContent] Accession numbers: 146002.
biodb.TRACE[2024-06-08 16:04:12.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:12.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:12.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:12.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:12.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:12.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:12.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:12.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:12.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:12.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:12.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:12.201][private$loadEntries] Creating entries from ids [1]: "65641".
biodb.DEBUG[2024-06-08 16:04:12.202][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:12.204][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65641".
biodb.TRACE[2024-06-08 16:04:12.206][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:12.207][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:12.208][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:12.210][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:12.211][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:12.212][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:12.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:12.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:12.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:12.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:12.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:12.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:12.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:12.228][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.DEBUG[2024-06-08 16:04:12.232][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:12.233][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:12.235][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641".
biodb.TRACE[2024-06-08 16:04:12.603][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65641).
biodb.DEBUG[2024-06-08 16:04:12.972][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:12.974][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.content"
biodb.TRACE[2024-06-08 16:04:12.979][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cb3af00d6d6a96efc61a93d5105272fc.request"
biodb.TRACE[2024-06-08 16:04:12.982][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65641.xml"
biodb.DEBUG[2024-06-08 16:04:12.984][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:12.986][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:12.987][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:12.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:12.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:12.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:12.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:12.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:13.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:13.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:13.007][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.009][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.019][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:13.020][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:13.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.023][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.024][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:13.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:13.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.030][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:13.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:13.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.034][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.035][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:13.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:13.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.040][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:13.042][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:13.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.044][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:13.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:13.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:13.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:13.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.054][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:13.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:13.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.061][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:13.062][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:13.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.064][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.066][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:13.067][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.070][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.071][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:13.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.076][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:13.078][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:13.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:13.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:13.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.087][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:13.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:13.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.092][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:13.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:13.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.098][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:13.099][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:13.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:13.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:13.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.120][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:13.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:13.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.124][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:13.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:13.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:13.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:13.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:13.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:13.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:13.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:13.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:13.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:13.180][self$createEntryFromContent] Accession numbers: 65641.
biodb.TRACE[2024-06-08 16:04:13.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:13.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:13.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:13.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:13.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:13.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:13.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:13.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:13.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:13.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:13.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:13.210][private$loadEntries] Creating entries from ids [1]: "144071".
biodb.DEBUG[2024-06-08 16:04:13.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:13.213][cch$loadFileContent] Trying to load 1 files from cache: [1]: "144071".
biodb.TRACE[2024-06-08 16:04:13.214][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:13.216][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:13.217][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:13.218][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:13.220][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:13.221][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:13.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:13.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:13.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:13.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:13.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:13.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:13.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:13.238][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.DEBUG[2024-06-08 16:04:13.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:13.243][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:13.245][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071".
biodb.TRACE[2024-06-08 16:04:13.614][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=144071).
biodb.DEBUG[2024-06-08 16:04:13.982][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:13.985][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.content"
biodb.TRACE[2024-06-08 16:04:13.990][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/147c6b10a8e09e725fbbb250103f039d.request"
biodb.TRACE[2024-06-08 16:04:13.994][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/144071.xml"
biodb.DEBUG[2024-06-08 16:04:13.996][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:13.998][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:13.999][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:14.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.016][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.027][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:14.028][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:14.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.032][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:14.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:14.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.037][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:14.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:14.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.041][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.043][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:14.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:14.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.048][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:14.049][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:14.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.052][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.054][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:14.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:14.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.059][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:14.060][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:14.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.062][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:14.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:14.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.069][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:14.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:14.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.075][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:14.076][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.079][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.080][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:14.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.086][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:14.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:14.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.090][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:14.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:14.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.097][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:14.098][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:14.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.101][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:14.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:14.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.108][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:14.110][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:14.111][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.112][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:14.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:14.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:14.121][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:14.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.125][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:14.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:14.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:14.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:14.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:14.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:14.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:14.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:14.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:14.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:14.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.181][self$createEntryFromContent] Accession numbers: 144071.
biodb.TRACE[2024-06-08 16:04:14.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:14.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:14.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:14.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:14.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:14.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:14.392][private$loadEntries] Creating entries from ids [1]: "168650".
biodb.DEBUG[2024-06-08 16:04:14.393][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:14.395][cch$loadFileContent] Trying to load 1 files from cache: [1]: "168650".
biodb.TRACE[2024-06-08 16:04:14.397][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:14.398][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:14.399][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:14.400][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:14.402][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:14.403][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:14.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:14.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:14.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:14.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:14.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:14.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:14.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:14.421][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.DEBUG[2024-06-08 16:04:14.424][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:14.426][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:14.428][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650".
biodb.TRACE[2024-06-08 16:04:14.797][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=168650).
biodb.DEBUG[2024-06-08 16:04:15.176][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:15.179][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.content"
biodb.TRACE[2024-06-08 16:04:15.184][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fbd7acd341e86313aeb547b3d6d3201b.request"
biodb.TRACE[2024-06-08 16:04:15.187][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/168650.xml"
biodb.DEBUG[2024-06-08 16:04:15.189][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:15.191][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:15.192][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:15.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:15.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:15.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:15.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:15.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:15.205][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:15.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:15.209][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.211][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.219][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:15.221][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:15.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:15.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:15.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.230][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:15.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:15.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:15.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:15.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.240][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:15.242][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:15.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.244][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.246][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:15.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:15.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.251][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:15.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:15.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.256][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:15.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:15.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.261][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:15.262][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:15.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.264][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.266][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:15.267][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.270][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:15.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.276][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:15.278][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:15.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.280][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:15.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:15.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.286][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:15.288][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:15.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.290][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.292][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:15.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:15.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.297][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:15.298][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:15.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.302][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:15.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:15.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.307][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:15.308][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:15.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.310][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.312][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:15.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:15.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:15.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:15.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:15.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:15.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:15.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:15.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:15.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:15.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:15.367][self$createEntryFromContent] Accession numbers: 168650.
biodb.TRACE[2024-06-08 16:04:15.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:15.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:15.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:15.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:15.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:15.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:15.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:15.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:15.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:15.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:15.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:15.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:15.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:15.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:15.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:15.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:15.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:15.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:15.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:15.425][private$loadEntries] Creating entries from ids [1]: "169305".
biodb.DEBUG[2024-06-08 16:04:15.427][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:15.429][cch$loadFileContent] Trying to load 1 files from cache: [1]: "169305".
biodb.TRACE[2024-06-08 16:04:15.430][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:15.431][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:15.433][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:15.434][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:15.435][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:15.436][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:15.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:15.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:15.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:15.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:15.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:15.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:15.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:15.469][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.DEBUG[2024-06-08 16:04:15.475][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:15.478][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:15.481][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305".
biodb.TRACE[2024-06-08 16:04:15.853][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=169305).
biodb.DEBUG[2024-06-08 16:04:16.224][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:16.226][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.content"
biodb.TRACE[2024-06-08 16:04:16.231][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5eab934e4cfb5514f373385a6170c282.request"
biodb.TRACE[2024-06-08 16:04:16.234][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/169305.xml"
biodb.DEBUG[2024-06-08 16:04:16.236][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:16.237][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:16.239][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:16.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:16.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:16.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:16.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:16.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:16.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:16.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:16.256][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.257][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.266][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:16.267][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:16.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.270][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.271][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:16.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:16.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.276][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:16.277][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:16.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.280][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:16.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:16.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.286][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:16.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:16.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.290][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:16.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:16.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.296][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:16.297][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:16.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:16.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:16.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.306][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:16.307][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:16.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.310][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.311][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:16.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.317][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:16.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.322][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:16.323][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:16.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.326][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:16.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:16.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.332][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:16.334][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:16.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:16.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:16.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:16.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:16.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.347][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:16.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:16.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:16.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:16.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.357][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:16.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:16.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:16.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:16.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:16.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:16.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:16.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:16.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:16.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:16.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:16.414][self$createEntryFromContent] Accession numbers: 169305.
biodb.TRACE[2024-06-08 16:04:16.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:16.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:16.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:16.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:16.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:16.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:16.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:16.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:16.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:16.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:16.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:16.442][private$loadEntries] Creating entries from ids [1]: "176869".
biodb.DEBUG[2024-06-08 16:04:16.444][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:16.446][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176869".
biodb.TRACE[2024-06-08 16:04:16.447][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:16.448][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:16.450][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:16.451][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:16.452][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:16.453][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:16.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:16.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:16.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:16.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:16.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:16.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:16.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:16.470][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.DEBUG[2024-06-08 16:04:16.474][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:16.475][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:16.477][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869".
biodb.TRACE[2024-06-08 16:04:16.848][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176869).
biodb.DEBUG[2024-06-08 16:04:17.219][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:17.222][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.content"
biodb.TRACE[2024-06-08 16:04:17.226][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2c477fa42863c662724815d047e8c32.request"
biodb.TRACE[2024-06-08 16:04:17.230][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176869.xml"
biodb.DEBUG[2024-06-08 16:04:17.232][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:17.233][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:17.235][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:17.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:17.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:17.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:17.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:17.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:17.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:17.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:17.252][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.253][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.256][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.263][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:17.264][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:17.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.268][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:17.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:17.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.273][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:17.275][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:17.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.277][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:17.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:17.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.284][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:17.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:17.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.288][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:17.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:17.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.295][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:17.296][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:17.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.299][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:17.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:17.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.306][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:17.307][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:17.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.310][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.311][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:17.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.317][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:17.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.322][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:17.323][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:17.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.326][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:17.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:17.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.332][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:17.334][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:17.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:17.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:17.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:17.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:17.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.347][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:17.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:17.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.353][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:17.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:17.356][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.357][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:17.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:17.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:17.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:17.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:17.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:17.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:17.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:17.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:17.429][self$createEntryFromContent] Accession numbers: 176869.
biodb.TRACE[2024-06-08 16:04:17.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:17.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:17.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:17.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:17.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:17.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:17.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:17.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:17.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:17.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:17.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:17.459][private$loadEntries] Creating entries from ids [1]: "185696".
biodb.DEBUG[2024-06-08 16:04:17.460][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:17.462][cch$loadFileContent] Trying to load 1 files from cache: [1]: "185696".
biodb.TRACE[2024-06-08 16:04:17.463][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:17.465][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:17.466][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:17.467][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:17.468][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:17.470][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:17.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:17.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:17.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:17.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:17.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:17.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:17.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:17.486][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.DEBUG[2024-06-08 16:04:17.489][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:17.491][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:17.492][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696".
biodb.TRACE[2024-06-08 16:04:17.864][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=185696).
biodb.DEBUG[2024-06-08 16:04:18.235][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:18.237][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.content"
biodb.TRACE[2024-06-08 16:04:18.242][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/030ac759c83231dbd7b7d6c83788888c.request"
biodb.TRACE[2024-06-08 16:04:18.245][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/185696.xml"
biodb.DEBUG[2024-06-08 16:04:18.247][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:18.249][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:18.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:18.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:18.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:18.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:18.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:18.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:18.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:18.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:18.267][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.270][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.277][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:18.278][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:18.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.282][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:18.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:18.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.287][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:18.288][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:18.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.291][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:18.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:18.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.298][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:18.299][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:18.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.301][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:18.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:18.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.308][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:18.309][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:18.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.312][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:18.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:18.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.318][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:18.319][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:18.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.323][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:18.325][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.327][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.329][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:18.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:18.335][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:18.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:18.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:18.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.344][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:18.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:18.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.347][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:18.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:18.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.354][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:18.355][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:18.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.358][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.359][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:18.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:18.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.364][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:18.366][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:18.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:18.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:18.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:18.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:18.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:18.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:18.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:18.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:18.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:18.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:18.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:18.426][self$createEntryFromContent] Accession numbers: 185696.
biodb.TRACE[2024-06-08 16:04:18.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:18.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:18.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:18.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:18.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:18.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:18.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:18.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:18.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:18.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:18.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:18.456][private$loadEntries] Creating entries from ids [1]: "190762".
biodb.DEBUG[2024-06-08 16:04:18.457][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:18.459][cch$loadFileContent] Trying to load 1 files from cache: [1]: "190762".
biodb.TRACE[2024-06-08 16:04:18.461][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:18.462][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:18.463][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:18.465][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:18.466][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:18.467][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:18.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:18.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:18.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:18.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:18.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:18.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:18.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:18.484][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.DEBUG[2024-06-08 16:04:18.488][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:18.489][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:18.491][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762".
biodb.TRACE[2024-06-08 16:04:18.858][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=190762).
biodb.DEBUG[2024-06-08 16:04:19.227][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:19.229][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.content"
biodb.TRACE[2024-06-08 16:04:19.234][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fa9da4de7d7dc0d4458ab1ff7bbbbda0.request"
biodb.TRACE[2024-06-08 16:04:19.238][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/190762.xml"
biodb.DEBUG[2024-06-08 16:04:19.240][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:19.242][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:19.243][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:19.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:19.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:19.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:19.253][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:19.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:19.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:19.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:19.260][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.261][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.263][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.270][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:19.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:19.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.287][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.288][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:19.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:19.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.294][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:19.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:19.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.298][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:19.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:19.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.304][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:19.306][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:19.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.308][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:19.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:19.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:19.316][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:19.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.318][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:19.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.325][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:19.326][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:19.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.330][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:19.332][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.334][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.336][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:19.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:19.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:19.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:19.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:19.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.352][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:19.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:19.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.356][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:19.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:19.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.362][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:19.364][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:19.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.366][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.368][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:19.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:19.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.373][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:19.374][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:19.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.377][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.378][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:19.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:19.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:19.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:19.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:19.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:19.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:19.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:19.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:19.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:19.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:19.435][self$createEntryFromContent] Accession numbers: 190762.
biodb.TRACE[2024-06-08 16:04:19.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:19.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:19.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:19.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:19.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:19.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:19.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:19.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:19.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:19.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:19.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:19.466][private$loadEntries] Creating entries from ids [1]: "193176".
biodb.DEBUG[2024-06-08 16:04:19.467][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:19.469][cch$loadFileContent] Trying to load 1 files from cache: [1]: "193176".
biodb.TRACE[2024-06-08 16:04:19.471][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:19.472][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:19.473][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:19.475][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:19.476][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:19.477][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:19.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:19.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:19.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:19.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:19.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:19.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:19.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:19.494][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.DEBUG[2024-06-08 16:04:19.497][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:19.498][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:19.500][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176".
biodb.TRACE[2024-06-08 16:04:19.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=193176).
biodb.DEBUG[2024-06-08 16:04:20.237][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:20.240][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.content"
biodb.TRACE[2024-06-08 16:04:20.245][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/343c078fd7b00f04bd71e6f2aebb6ed3.request"
biodb.TRACE[2024-06-08 16:04:20.248][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/193176.xml"
biodb.DEBUG[2024-06-08 16:04:20.251][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:20.252][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:20.254][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:20.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:20.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:20.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:20.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:20.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:20.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:20.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:20.272][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.276][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.283][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:20.284][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:20.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.287][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:20.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:20.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.294][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:20.296][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:20.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.298][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:20.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:20.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:20.306][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:20.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.309][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:20.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:20.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:20.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:20.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.319][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:20.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:20.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:20.328][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:20.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.332][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:20.333][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.337][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:20.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:20.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:20.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.346][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:20.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:20.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.353][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:20.354][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:20.355][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.356][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:20.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:20.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.364][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:20.365][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:20.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.367][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.369][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:20.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:20.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.374][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:20.375][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:20.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.379][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:20.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:20.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:20.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:20.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:20.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:20.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:20.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:20.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:20.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:20.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:20.435][self$createEntryFromContent] Accession numbers: 193176.
biodb.TRACE[2024-06-08 16:04:20.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:20.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:20.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:20.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:20.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:20.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:20.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:20.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:20.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:20.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:20.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:20.474][private$loadEntries] Creating entries from ids [1]: "196395".
biodb.DEBUG[2024-06-08 16:04:20.475][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:20.477][cch$loadFileContent] Trying to load 1 files from cache: [1]: "196395".
biodb.TRACE[2024-06-08 16:04:20.479][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:20.480][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:20.481][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:20.482][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:20.484][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:20.485][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:20.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:20.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:20.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:20.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:20.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:20.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:20.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:20.502][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.DEBUG[2024-06-08 16:04:20.505][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:20.506][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:20.508][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395".
biodb.TRACE[2024-06-08 16:04:20.878][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=196395).
biodb.DEBUG[2024-06-08 16:04:21.246][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:21.249][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.content"
biodb.TRACE[2024-06-08 16:04:21.253][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/73421bc681b7c5ac1a6297ef414ac513.request"
biodb.TRACE[2024-06-08 16:04:21.257][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/196395.xml"
biodb.DEBUG[2024-06-08 16:04:21.259][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:21.260][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:21.262][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:21.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.282][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.283][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.286][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.292][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:21.293][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:21.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.296][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.297][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:21.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:21.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.302][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:21.304][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:21.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.308][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:21.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:21.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.313][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:21.314][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:21.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.317][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:21.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:21.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.323][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:21.325][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:21.326][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.327][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:21.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.334][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:21.335][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:21.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.339][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:21.340][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.343][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.344][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:21.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.349][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:21.351][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:21.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.353][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.360][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:21.361][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:21.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.364][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.365][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:21.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:21.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.371][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:21.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:21.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.376][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:21.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:21.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:21.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:21.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.385][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.387][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:21.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:21.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:21.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:21.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.444][self$createEntryFromContent] Accession numbers: 196395.
biodb.TRACE[2024-06-08 16:04:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.490][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:21.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.501][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.516][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.518][private$selectFields]
biodb.TRACE[2024-06-08 16:04:21.519][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:21.520][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:21.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.523][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.527][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.532][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.534][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.539][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.540][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:21.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.557][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:04:21.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.581][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.582][private$selectFields]
biodb.TRACE[2024-06-08 16:04:21.583][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:21.584][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:21.585][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.592][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.593][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.598][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.602][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.604][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:21.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.629][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-06-08 16:04:21.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.655][private$selectFields]
biodb.TRACE[2024-06-08 16:04:21.656][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:21.657][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:21.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.660][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.664][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.665][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.666][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.668][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.671][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.673][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.677][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:21.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.694][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-06-08 16:04:21.695][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:21.696][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:21.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:21.738][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.5*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:21.742][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:21.743][cch$loadFileContent] Trying to load 1 files from cache: [1]: "ebf8c17fa19fb0caf99d83ca8441a2ac".
biodb.TRACE[2024-06-08 16:04:21.745][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:21.747][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ebf8c17fa19fb0caf99d83ca8441a2ac.content".
biodb.DEBUG[2024-06-08 16:04:21.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:21.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:21.868][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:21.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.871][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.894][private$selectFields]
biodb.TRACE[2024-06-08 16:04:21.896][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:21.897][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:21.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.908][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.909][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.910][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.915][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.916][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:21.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.933][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-06-08 16:04:21.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:21.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:21.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:21.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:21.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:21.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:21.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:21.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.958][private$selectFields]
biodb.TRACE[2024-06-08 16:04:21.960][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:21.961][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:21.962][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.967][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.968][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.969][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.972][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.973][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.974][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:21.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.977][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.979][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.980][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:21.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:21.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:21.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:21.997][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [8021].
biodb.DEBUG[2024-06-08 16:04:21.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.024][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.025][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.026][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.044][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.045][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.046][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.048][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.053][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.069][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [30382].
biodb.DEBUG[2024-06-08 16:04:22.070][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:22.071][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:22.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:22.089][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.4*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:22.093][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:22.094][cch$loadFileContent] Trying to load 1 files from cache: [1]: "152225e020c3e5947a0f5a90f021cee7".
biodb.TRACE[2024-06-08 16:04:22.096][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:22.098][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/152225e020c3e5947a0f5a90f021cee7.content".
biodb.DEBUG[2024-06-08 16:04:22.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.228][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.302][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:22.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.317][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.327][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.328][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.330][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.331][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.332][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.335][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.336][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.337][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.338][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.340][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.342][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.344][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.345][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.346][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.351][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.368][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65530].
biodb.DEBUG[2024-06-08 16:04:22.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.393][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.394][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.396][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.397][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.398][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.409][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.411][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.413][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.414][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.417][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.434][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [90204].
biodb.DEBUG[2024-06-08 16:04:22.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.460][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.461][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.469][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.471][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.475][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.478][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.482][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.483][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.486][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.491][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.492][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.509][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132793].
biodb.DEBUG[2024-06-08 16:04:22.510][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:22.511][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:22.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:22.529][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:22.533][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:22.535][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9686ce9c957a368dd8f5b4cc9c5b15b3".
biodb.TRACE[2024-06-08 16:04:22.536][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:22.538][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9686ce9c957a368dd8f5b4cc9c5b15b3.content".
biodb.DEBUG[2024-06-08 16:04:22.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.597][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.2*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:22.602][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:22.603][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5d833e77a1be58060d0c3916a1e1b293".
biodb.TRACE[2024-06-08 16:04:22.605][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:22.606][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5d833e77a1be58060d0c3916a1e1b293.content".
biodb.DEBUG[2024-06-08 16:04:22.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.696][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:22.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.723][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.724][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.725][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.729][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.731][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.737][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.739][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.740][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.741][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.744][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.745][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.762][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51836].
biodb.DEBUG[2024-06-08 16:04:22.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.788][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.789][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.791][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.797][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.800][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.802][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.803][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.805][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.810][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.811][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.828][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [51837].
biodb.DEBUG[2024-06-08 16:04:22.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.831][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.854][private$selectFields]
biodb.TRACE[2024-06-08 16:04:22.855][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:22.856][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:22.857][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.867][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.868][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.870][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:22.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.874][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.876][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:22.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:22.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.899][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [132205].
biodb.DEBUG[2024-06-08 16:04:22.900][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:22.901][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:22.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:22.942][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:22.947][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:22.948][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:04:22.950][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:22.952][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:04:22.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:22.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:22.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:22.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:22.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:22.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:22.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:22.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:22.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:22.984][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:22.988][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:22.990][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:04:22.992][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:22.993][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:04:22.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:22.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:22.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.056][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:23.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.083][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.084][private$selectFields]
biodb.TRACE[2024-06-08 16:04:23.086][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:23.087][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:23.088][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.093][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.094][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.098][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.101][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.106][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.107][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:23.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.120][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.125][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-06-08 16:04:23.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.153][private$selectFields]
biodb.TRACE[2024-06-08 16:04:23.154][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:23.155][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:23.156][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.157][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.161][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.162][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.164][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.167][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.168][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.170][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.171][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.173][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.175][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:23.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.191][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:04:23.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.216][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.217][private$selectFields]
biodb.TRACE[2024-06-08 16:04:23.219][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:23.220][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:23.221][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.224][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.226][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.234][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.239][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.240][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:23.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.256][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-06-08 16:04:23.258][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:23.259][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:23.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.270][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:23.277][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:23.281][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:23.283][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-06-08 16:04:23.284][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:23.286][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-06-08 16:04:23.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.353][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:23.357][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:23.359][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-06-08 16:04:23.360][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:23.362][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-06-08 16:04:23.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.374][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.450][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:23.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.476][private$selectFields]
biodb.TRACE[2024-06-08 16:04:23.478][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:23.479][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:23.480][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.481][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.483][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.485][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.487][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.488][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.490][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.493][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.497][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.498][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.499][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:23.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.516][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:04:23.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.542][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.543][private$selectFields]
biodb.TRACE[2024-06-08 16:04:23.544][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:23.546][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:23.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.548][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.549][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.552][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.553][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.557][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.559][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.562][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.565][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:23.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.582][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:04:23.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.607][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.608][private$selectFields]
biodb.TRACE[2024-06-08 16:04:23.609][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:23.610][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:23.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.613][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.618][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.621][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.623][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.624][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:23.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.629][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.631][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:23.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:23.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.649][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:04:23.650][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:23.652][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:23.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:23.671][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:23.675][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:23.677][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-06-08 16:04:23.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:23.681][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-06-08 16:04:23.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.920][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:23.924][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:23.926][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-06-08 16:04:23.928][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:23.929][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-06-08 16:04:23.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:23.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:23.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:23.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:23.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:23.988][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:23.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:23.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:23.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:23.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:23.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:23.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.016][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:24.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.028][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.041][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.042][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.043][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.044][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.045][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.048][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.051][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.057][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.060][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.062][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.063][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.080][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:04:24.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.089][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.105][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.106][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.107][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.108][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.111][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.114][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.116][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.118][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.119][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.120][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.124][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.125][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.127][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.143][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-06-08 16:04:24.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.169][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.170][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.178][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.179][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.182][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.184][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.185][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.189][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.192][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.198][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.214][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-06-08 16:04:24.215][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:24.216][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:24.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:24.255][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.7*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:24.259][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:24.261][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2b6f29bb7a7663ff23fb5e7dcae5c27f".
biodb.TRACE[2024-06-08 16:04:24.262][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:24.264][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2b6f29bb7a7663ff23fb5e7dcae5c27f.content".
biodb.DEBUG[2024-06-08 16:04:24.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.436][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:24.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.462][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.463][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.464][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.470][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.473][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.476][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.478][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.481][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.484][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.500][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:04:24.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.525][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.526][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.528][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.531][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.532][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.536][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.539][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.541][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.542][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.546][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.547][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.548][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.565][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [28243].
biodb.DEBUG[2024-06-08 16:04:24.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.597][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.599][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.600][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.608][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.613][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.614][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.616][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.618][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.619][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.635][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [78144].
biodb.DEBUG[2024-06-08 16:04:24.636][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:24.638][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:24.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:24.655][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.6*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:24.659][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:24.661][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9a13652ab89a613a3b0e10d3b6cb10a0".
biodb.TRACE[2024-06-08 16:04:24.662][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:24.664][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9a13652ab89a613a3b0e10d3b6cb10a0.content".
biodb.DEBUG[2024-06-08 16:04:24.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.698][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:24.752][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:24.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.778][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.779][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.780][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.787][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.791][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.794][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.796][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.800][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.816][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:04:24.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.841][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.842][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.845][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.852][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.854][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.857][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.858][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.859][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.863][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.879][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:04:24.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.903][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.904][private$selectFields]
biodb.TRACE[2024-06-08 16:04:24.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:24.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:24.908][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.919][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.920][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:24.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.925][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.927][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:24.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:24.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.944][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [19804].
biodb.DEBUG[2024-06-08 16:04:24.945][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:24.946][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:24.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:24.964][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:24.968][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:24.970][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a985300ab8a01d49254fbf993ad91279".
biodb.TRACE[2024-06-08 16:04:24.972][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:24.973][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a985300ab8a01d49254fbf993ad91279.content".
biodb.DEBUG[2024-06-08 16:04:24.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:24.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:24.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:24.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:24.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:24.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:24.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:24.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:24.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:24.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:24.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.036][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.218][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.461][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.481][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:25.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:25.780][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:25.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.807][private$selectFields]
biodb.TRACE[2024-06-08 16:04:25.808][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:25.809][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:25.810][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.817][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.820][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.823][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.824][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.825][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.827][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.828][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.829][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:25.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.853][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:04:25.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.877][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.878][private$selectFields]
biodb.TRACE[2024-06-08 16:04:25.880][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:25.881][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:25.882][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.883][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.884][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.888][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.893][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.894][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.897][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.899][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.900][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:25.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.916][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [71954].
biodb.DEBUG[2024-06-08 16:04:25.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:25.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:25.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:25.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:25.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:25.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:25.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:25.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.942][private$selectFields]
biodb.TRACE[2024-06-08 16:04:25.943][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:25.944][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:25.945][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.949][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.950][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.955][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.958][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:25.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.960][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.963][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.964][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:25.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:25.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:25.981][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [197612].
biodb.DEBUG[2024-06-08 16:04:25.982][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:25.983][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:04:26.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:26.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:26.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:26.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:26.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:26.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:26.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:26.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:26.082][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:26.086][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:26.087][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:26.090][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:26.468][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:26.930][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:26.932][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content"
biodb.TRACE[2024-06-08 16:04:26.938][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.request"
biodb.DEBUG[2024-06-08 16:04:26.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:26.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:26.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:26.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:26.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:26.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:26.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:26.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:26.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:26.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:26.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:26.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:26.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:26.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:26.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:26.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:26.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:26.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:27.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:27.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:27.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:27.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:27.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:27.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:27.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:27.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:27.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:27.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:27.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:27.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:27.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:27.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:27.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:27.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:27.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:27.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:27.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:27.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:27.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:27.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:27.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:27.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:27.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:27.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:27.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:27.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:27.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:27.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:27.111][private$loadEntries] Creating entries from ids [1]: "9442".
biodb.DEBUG[2024-06-08 16:04:27.112][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:27.114][cch$loadFileContent] Trying to load 1 files from cache: [1]: "9442".
biodb.TRACE[2024-06-08 16:04:27.116][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:27.117][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:27.118][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:27.120][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:27.121][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:27.122][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:27.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:27.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:27.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:27.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:27.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:27.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:27.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:27.138][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.DEBUG[2024-06-08 16:04:27.142][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:27.143][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:27.145][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442".
biodb.TRACE[2024-06-08 16:04:27.513][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=9442).
biodb.DEBUG[2024-06-08 16:04:27.884][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:27.886][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.content"
biodb.TRACE[2024-06-08 16:04:27.890][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7d1576b26aed79f4c1d758a3f87c749b.request"
biodb.TRACE[2024-06-08 16:04:27.894][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9442.xml"
biodb.DEBUG[2024-06-08 16:04:27.896][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:27.897][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:27.898][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:27.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:27.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:27.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:27.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:27.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:27.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:27.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:27.914][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:27.915][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:27.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:27.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:27.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.924][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:27.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:27.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.929][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:27.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:27.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.934][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:27.935][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:27.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:27.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:27.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.944][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:27.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:27.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.947][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:27.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:27.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.954][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:27.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:27.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:27.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:27.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:27.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:27.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.967][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.969][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:27.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:27.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.974][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:27.975][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:27.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.979][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:27.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:27.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.984][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.986][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:27.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:27.994][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:27.996][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:27.997][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:27.998][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:28.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:28.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.005][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:28.006][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:28.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.008][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.010][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:28.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:28.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.015][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:28.016][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:28.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.020][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:28.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:28.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:28.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:28.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:28.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:28.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:28.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:28.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:28.074][self$createEntryFromContent] Accession numbers: 9442.
biodb.TRACE[2024-06-08 16:04:28.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:28.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:28.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:28.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:28.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:28.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:28.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:28.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:28.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:28.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:28.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:28.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:28.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:28.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:28.104][private$loadEntries] Creating entries from ids [1]: "34764".
biodb.DEBUG[2024-06-08 16:04:28.105][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:28.107][cch$loadFileContent] Trying to load 1 files from cache: [1]: "34764".
biodb.TRACE[2024-06-08 16:04:28.109][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:28.110][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:28.111][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:28.112][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:28.114][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:28.115][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:28.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:28.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:28.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:28.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:28.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:28.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:28.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:28.131][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.DEBUG[2024-06-08 16:04:28.134][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:28.135][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:28.137][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764".
biodb.TRACE[2024-06-08 16:04:28.505][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=34764).
biodb.DEBUG[2024-06-08 16:04:28.877][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:28.880][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.content"
biodb.TRACE[2024-06-08 16:04:28.885][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a38508ac0dc37ed2da31f7bda33ae97f.request"
biodb.TRACE[2024-06-08 16:04:28.888][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/34764.xml"
biodb.DEBUG[2024-06-08 16:04:28.890][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:28.892][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:28.893][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:28.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:28.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:28.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:28.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:28.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:28.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:28.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:28.910][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.911][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:28.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:28.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.920][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:28.921][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:28.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.924][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.925][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:28.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:28.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.930][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:28.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:28.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.934][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.935][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:28.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:28.942][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:28.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.944][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:28.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:28.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.951][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:28.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:28.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:28.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:28.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.961][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:28.962][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:28.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.964][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.966][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:28.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:28.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.971][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:28.972][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:28.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:28.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:28.976][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:29.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:29.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.015][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.016][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.026][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:29.027][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:29.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.029][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.031][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:29.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:29.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.036][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:29.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:29.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.042][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:29.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:29.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.047][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:29.048][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:29.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:29.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:29.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:29.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:29.107][self$createEntryFromContent] Accession numbers: 34764.
biodb.TRACE[2024-06-08 16:04:29.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:29.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:29.123][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:29.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:29.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:29.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:29.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:29.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:29.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:29.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:29.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.150][private$selectFields]
biodb.TRACE[2024-06-08 16:04:29.151][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:29.152][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:29.153][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.154][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.158][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.159][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.163][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.165][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.167][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.168][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.170][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.172][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:29.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.188][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-06-08 16:04:29.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:29.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:29.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:29.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:29.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:29.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:29.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.213][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.214][private$selectFields]
biodb.TRACE[2024-06-08 16:04:29.215][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:29.217][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:29.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.221][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.224][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.225][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.226][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.229][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.230][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.231][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.234][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.237][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.238][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:29.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.255][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:04:29.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:29.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:29.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:29.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:29.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:29.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:29.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:29.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.280][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.281][private$selectFields]
biodb.TRACE[2024-06-08 16:04:29.282][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:29.283][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:29.284][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.286][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.287][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.289][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.291][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.292][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.294][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.297][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:29.298][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.299][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.302][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.303][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:29.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:29.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:29.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:29.319][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2024-06-08 16:04:29.321][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:29.322][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:29.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:29.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:29.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:29.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:29.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:29.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:29.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:29.340][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:29.345][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:29.346][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:29.349][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:29.730][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:30.290][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:30.292][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content"
biodb.TRACE[2024-06-08 16:04:30.298][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.request"
biodb.DEBUG[2024-06-08 16:04:30.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:30.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:30.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:30.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:30.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:30.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:30.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:30.325][private$loadEntries] Creating entries from ids [1]: "2535".
biodb.DEBUG[2024-06-08 16:04:30.327][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:30.329][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2535".
biodb.TRACE[2024-06-08 16:04:30.331][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:30.332][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:30.333][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:30.335][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:30.336][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:30.337][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:30.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:30.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:30.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:30.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:30.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:30.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:30.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:30.354][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.DEBUG[2024-06-08 16:04:30.358][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:30.359][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:30.361][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535".
biodb.TRACE[2024-06-08 16:04:30.734][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2535).
biodb.DEBUG[2024-06-08 16:04:31.109][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:31.111][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.content"
biodb.TRACE[2024-06-08 16:04:31.128][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e1d9514645c3005d4e4f643b2d18f099.request"
biodb.TRACE[2024-06-08 16:04:31.131][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2535.xml"
biodb.DEBUG[2024-06-08 16:04:31.133][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:31.134][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:31.136][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:31.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:31.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:31.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:31.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:31.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:31.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:31.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:31.152][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.154][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.156][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.162][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:31.164][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:31.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.168][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:31.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:31.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.173][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:31.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:31.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:31.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:31.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.183][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:31.184][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:31.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.187][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:31.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:31.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.193][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:31.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:31.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.197][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:31.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:31.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.203][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:31.204][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:31.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.208][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:31.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:31.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.213][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:31.215][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:31.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.218][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:31.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:31.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.227][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.234][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:31.235][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:31.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.237][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.239][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:31.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.244][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:31.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:31.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:31.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:31.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.254][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:31.256][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:31.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.260][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:31.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:31.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:31.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:31.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:31.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:31.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:31.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:31.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:31.315][self$createEntryFromContent] Accession numbers: 2535.
biodb.TRACE[2024-06-08 16:04:31.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:31.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:31.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:31.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:31.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:31.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:31.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:31.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:31.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:31.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:31.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:31.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:31.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:31.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:31.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:31.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:31.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:31.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:31.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:31.373][private$loadEntries] Creating entries from ids [1]: "5525".
biodb.DEBUG[2024-06-08 16:04:31.374][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:31.376][cch$loadFileContent] Trying to load 1 files from cache: [1]: "5525".
biodb.TRACE[2024-06-08 16:04:31.377][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:31.379][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:31.380][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:31.381][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:31.383][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:31.384][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:31.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:31.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:31.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:31.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:31.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:31.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:31.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:31.400][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.DEBUG[2024-06-08 16:04:31.404][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:31.405][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:31.407][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525".
biodb.TRACE[2024-06-08 16:04:31.779][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=5525).
biodb.DEBUG[2024-06-08 16:04:32.149][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:32.151][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.content"
biodb.TRACE[2024-06-08 16:04:32.156][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8c1563abc6b93d34a6b6b66375881583.request"
biodb.TRACE[2024-06-08 16:04:32.160][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5525.xml"
biodb.DEBUG[2024-06-08 16:04:32.162][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:32.163][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:32.165][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:32.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:32.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:32.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:32.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:32.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:32.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:32.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:32.182][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.193][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:32.194][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:32.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.198][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:32.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:32.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.203][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:32.204][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:32.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.208][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:32.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:32.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.214][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:32.215][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:32.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:32.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:32.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.224][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:32.225][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:32.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.228][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:32.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:32.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:32.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:32.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.238][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:32.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.245][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:32.246][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:32.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.250][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:32.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:32.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.257][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.266][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:32.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:32.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.269][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.271][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:32.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:32.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.276][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:32.285][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:32.302][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.303][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.305][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:32.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:32.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.310][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:32.312][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:32.313][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.316][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:32.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:32.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:32.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:32.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:32.372][self$createEntryFromContent] Accession numbers: 5525.
biodb.TRACE[2024-06-08 16:04:32.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:32.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:32.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:32.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:32.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:32.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:32.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:32.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:32.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:32.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:32.425][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:32.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:32.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:32.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:32.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:32.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:32.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:32.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.452][private$selectFields]
biodb.TRACE[2024-06-08 16:04:32.453][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:32.454][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:32.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.456][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.458][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.460][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.463][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.465][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.466][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.468][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.469][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.474][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:32.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.491][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2024-06-08 16:04:32.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:32.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:32.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:32.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:32.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:32.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:32.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:32.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.515][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.516][private$selectFields]
biodb.TRACE[2024-06-08 16:04:32.517][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:32.519][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:32.520][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.521][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.526][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.527][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.530][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.532][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.537][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.538][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:32.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.555][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:04:32.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:32.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:32.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:32.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:32.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:32.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:32.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:32.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.579][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.580][private$selectFields]
biodb.TRACE[2024-06-08 16:04:32.582][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:32.583][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:32.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.589][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.590][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.594][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.596][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:32.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.601][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.602][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:32.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:32.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:32.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:32.619][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:04:32.620][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:32.621][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:32.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:32.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:32.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:32.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:32.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:32.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:32.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:32.639][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:32.643][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:32.644][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:32.647][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:33.017][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:33.387][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:33.389][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content"
biodb.TRACE[2024-06-08 16:04:33.394][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.request"
biodb.DEBUG[2024-06-08 16:04:33.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:33.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:33.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:33.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:33.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:33.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:33.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:33.450][private$loadEntries] Creating entries from ids [1]: "31303".
biodb.DEBUG[2024-06-08 16:04:33.451][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:33.453][cch$loadFileContent] Trying to load 1 files from cache: [1]: "31303".
biodb.TRACE[2024-06-08 16:04:33.454][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:33.456][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:33.457][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:33.458][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:33.460][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:33.461][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:33.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:33.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:33.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:33.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:33.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:33.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:33.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:33.477][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.DEBUG[2024-06-08 16:04:33.481][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:33.482][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:33.484][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303".
biodb.TRACE[2024-06-08 16:04:33.852][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=31303).
biodb.DEBUG[2024-06-08 16:04:34.222][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:34.225][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.content"
biodb.TRACE[2024-06-08 16:04:34.229][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/99089a071b7e4bcfb0ef9a12b49b39b2.request"
biodb.TRACE[2024-06-08 16:04:34.245][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/31303.xml"
biodb.DEBUG[2024-06-08 16:04:34.247][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:34.249][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:34.251][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:34.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:34.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:34.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:34.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:34.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:34.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:34.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:34.268][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.278][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:34.280][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:34.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.282][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:34.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:34.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.288][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:34.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:34.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.292][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:34.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:34.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.299][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:34.300][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:34.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.302][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:34.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:34.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:34.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:34.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.313][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:34.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:34.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.319][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:34.320][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:34.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.323][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.324][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:34.326][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:34.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.328][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.329][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:34.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:34.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.338][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.345][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:34.346][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:34.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.348][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:34.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:34.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.355][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:34.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:34.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.359][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:34.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:34.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.366][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:34.367][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:34.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.369][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.371][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:34.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:34.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:34.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:34.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:34.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:34.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:34.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:34.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:34.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:34.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:34.425][self$createEntryFromContent] Accession numbers: 31303.
biodb.TRACE[2024-06-08 16:04:34.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:34.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:34.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:34.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:34.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:34.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:34.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:34.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:34.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:34.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:34.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:34.453][private$loadEntries] Creating entries from ids [1]: "37118".
biodb.DEBUG[2024-06-08 16:04:34.455][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:34.457][cch$loadFileContent] Trying to load 1 files from cache: [1]: "37118".
biodb.TRACE[2024-06-08 16:04:34.458][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:34.459][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:34.461][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:34.462][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:34.463][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:34.464][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:34.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:34.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:34.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:34.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:34.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:34.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:34.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:34.481][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.DEBUG[2024-06-08 16:04:34.484][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:34.485][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:34.487][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118".
biodb.TRACE[2024-06-08 16:04:41.061][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=37118).
biodb.DEBUG[2024-06-08 16:04:41.430][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:41.433][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.content"
biodb.TRACE[2024-06-08 16:04:41.438][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37e09c6197385dffaf0a241198ec6309.request"
biodb.TRACE[2024-06-08 16:04:41.441][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/37118.xml"
biodb.DEBUG[2024-06-08 16:04:41.443][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:41.445][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:41.446][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:41.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:41.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:41.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:41.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:41.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:41.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:41.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:41.463][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.465][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.466][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.467][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.474][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:41.475][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:41.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.478][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:41.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:41.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.485][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:41.486][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:41.487][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.490][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:41.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:41.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.495][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:41.497][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:41.498][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.499][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:41.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:41.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.506][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:41.507][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:41.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.510][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:41.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:41.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.516][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:41.518][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:41.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.520][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.522][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:41.523][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:41.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.527][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:41.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:41.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.532][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.534][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.543][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:41.544][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:41.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:41.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:41.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.553][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:41.555][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:41.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.557][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.558][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:41.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:41.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.564][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:41.565][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:41.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.567][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.569][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:41.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:41.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:41.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:41.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:41.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:41.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.584][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:41.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:41.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:41.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:41.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:41.635][self$createEntryFromContent] Accession numbers: 37118.
biodb.TRACE[2024-06-08 16:04:41.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:41.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:41.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:41.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:41.651][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:41.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:41.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:41.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:41.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:41.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:41.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:41.665][private$loadEntries] Creating entries from ids [1]: "39424".
biodb.DEBUG[2024-06-08 16:04:41.666][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:41.668][cch$loadFileContent] Trying to load 1 files from cache: [1]: "39424".
biodb.TRACE[2024-06-08 16:04:41.669][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:41.671][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:41.672][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:41.673][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:41.675][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:41.676][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:41.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:41.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:41.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:41.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:41.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:41.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:41.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:41.693][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.DEBUG[2024-06-08 16:04:41.696][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:41.697][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:41.699][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424".
biodb.TRACE[2024-06-08 16:04:42.068][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=39424).
biodb.DEBUG[2024-06-08 16:04:42.436][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:42.438][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.content"
biodb.TRACE[2024-06-08 16:04:42.443][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/da5bac251de02a0ce66c3d69c0d59bb8.request"
biodb.TRACE[2024-06-08 16:04:42.446][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/39424.xml"
biodb.DEBUG[2024-06-08 16:04:42.448][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:42.449][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:42.451][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:42.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:42.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:42.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:42.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:42.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:42.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:42.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:42.468][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.469][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.478][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:42.479][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:42.480][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.482][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.483][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:42.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:42.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.488][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:42.490][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:42.491][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.492][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:42.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:42.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:42.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:42.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.502][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:42.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:42.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.509][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:42.510][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:42.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.513][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:42.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:42.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:42.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.523][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.524][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:42.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:42.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.528][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.530][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:42.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:42.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.535][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.536][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.538][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.545][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:42.546][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:42.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:42.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:42.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.555][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:42.557][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:42.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.559][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.561][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:42.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:42.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:42.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.569][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.571][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:42.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:42.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:42.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:42.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:42.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:42.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:42.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:42.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:42.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:42.626][self$createEntryFromContent] Accession numbers: 39424.
biodb.TRACE[2024-06-08 16:04:42.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:42.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:42.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:42.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:42.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:42.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:42.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:42.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:42.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:42.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:42.656][private$loadEntries] Creating entries from ids [1]: "81767".
biodb.DEBUG[2024-06-08 16:04:42.657][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:42.659][cch$loadFileContent] Trying to load 1 files from cache: [1]: "81767".
biodb.TRACE[2024-06-08 16:04:42.661][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:42.662][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:42.663][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:42.664][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:42.666][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:42.667][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:42.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:42.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:42.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:42.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:42.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:42.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:42.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:42.683][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.DEBUG[2024-06-08 16:04:42.687][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:42.688][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:42.690][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767".
biodb.TRACE[2024-06-08 16:04:43.062][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=81767).
biodb.DEBUG[2024-06-08 16:04:43.431][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:43.433][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.content"
biodb.TRACE[2024-06-08 16:04:43.438][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6d9dc9192959d977e17745ebfa06bb73.request"
biodb.TRACE[2024-06-08 16:04:43.442][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/81767.xml"
biodb.DEBUG[2024-06-08 16:04:43.444][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:43.446][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:43.447][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:43.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:43.464][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.466][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.467][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.468][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.475][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:43.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:43.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.480][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:43.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:43.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.485][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:43.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:43.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:43.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:43.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.509][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:43.510][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:43.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.513][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:43.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:43.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.520][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:43.521][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:43.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.523][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:43.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:43.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.530][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:43.531][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:43.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.533][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.535][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:43.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:43.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.540][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:43.541][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:43.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.543][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:43.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:43.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.551][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.554][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.560][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:43.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:43.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:43.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:43.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.570][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:43.572][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:43.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.574][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.575][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:43.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:43.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.580][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:43.582][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:43.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.584][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.585][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:43.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:43.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:43.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:43.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:43.640][self$createEntryFromContent] Accession numbers: 81767.
biodb.TRACE[2024-06-08 16:04:43.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:43.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:43.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.675][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:43.685][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:43.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:43.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.710][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.711][private$selectFields]
biodb.TRACE[2024-06-08 16:04:43.713][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:43.714][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:43.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.718][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.720][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.725][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.727][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.732][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.734][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:43.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.750][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2024-06-08 16:04:43.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:43.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.775][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.776][private$selectFields]
biodb.TRACE[2024-06-08 16:04:43.778][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:43.779][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:43.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.785][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.786][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.790][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.793][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.799][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:43.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.816][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2024-06-08 16:04:43.817][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:43.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.840][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.841][private$selectFields]
biodb.TRACE[2024-06-08 16:04:43.843][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:43.844][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:43.845][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.846][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.856][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.857][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:43.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.864][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:43.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:43.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.880][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2024-06-08 16:04:43.882][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:43.883][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:43.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:43.932][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:43.937][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:43.939][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-08 16:04:43.940][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:43.942][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-08 16:04:43.946][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:43.950][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:43.952][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-08 16:04:43.954][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:43.955][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-08 16:04:43.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:43.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:43.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:43.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:43.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:43.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:43.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:43.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:43.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:43.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:43.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:43.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.044][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:44.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.071][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.072][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.073][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.074][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.077][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.085][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.086][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.087][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.089][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.090][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.093][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.094][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.110][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:04:44.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.136][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.137][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.138][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.144][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.149][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.150][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.152][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.153][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.154][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.158][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.174][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:04:44.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.199][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.200][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.201][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.202][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.203][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.205][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.208][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.214][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.216][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.222][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.238][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:04:44.239][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:44.241][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:44.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:44.258][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:44.262][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:44.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-06-08 16:04:44.265][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:44.267][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-06-08 16:04:44.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.326][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.362][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:44.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.387][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.389][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.390][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.391][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.392][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.394][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.396][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.401][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.402][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.403][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.404][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.409][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.426][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:04:44.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.451][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.452][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.453][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.455][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.456][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.457][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.458][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.460][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.462][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.464][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.466][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.467][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.470][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.473][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.490][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-06-08 16:04:44.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.515][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.516][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.518][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.519][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.520][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.521][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.524][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.525][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.529][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.531][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.537][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.554][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-06-08 16:04:44.555][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:44.556][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:44.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:44.574][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:44.578][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:04:44.580][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-06-08 16:04:44.581][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:04:44.583][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-06-08 16:04:44.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:44.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:44.672][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:44.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.699][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.700][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.701][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.705][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.707][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.712][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.715][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.717][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.720][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.721][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.738][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-06-08 16:04:44.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.771][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.772][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.773][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.774][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.777][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.779][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.782][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.783][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.784][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.786][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.791][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.793][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-06-08 16:04:44.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:44.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.834][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.835][private$selectFields]
biodb.TRACE[2024-06-08 16:04:44.836][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:44.838][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:44.839][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.840][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.841][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.849][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.851][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:44.853][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.854][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.858][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:44.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:44.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:44.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:44.874][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-06-08 16:04:44.875][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:44.877][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:44.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:44.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:44.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:44.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:44.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:44.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:44.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:44.917][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:44.922][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:44.923][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:44.925][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:45.298][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:45.669][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:45.671][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content"
biodb.TRACE[2024-06-08 16:04:45.676][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.request"
biodb.DEBUG[2024-06-08 16:04:45.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:45.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:45.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:45.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:45.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:45.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:45.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:45.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:45.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:45.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:45.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:45.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:45.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:45.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:45.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:45.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:45.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:45.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:45.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:45.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:45.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:45.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:45.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:45.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:45.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:45.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:45.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:45.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:45.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:45.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:45.745][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:45.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:45.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:45.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:45.750][private$loadEntries] Creating entries from ids [1]: "17813".
biodb.DEBUG[2024-06-08 16:04:45.751][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:45.753][cch$loadFileContent] Trying to load 1 files from cache: [1]: "17813".
biodb.TRACE[2024-06-08 16:04:45.755][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:45.756][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:45.757][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:45.758][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:45.760][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:45.761][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:45.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:45.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:45.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:45.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:45.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:45.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:45.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:45.777][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.DEBUG[2024-06-08 16:04:45.780][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:45.782][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:45.783][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813".
biodb.TRACE[2024-06-08 16:04:46.153][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=17813).
biodb.DEBUG[2024-06-08 16:04:46.522][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:46.525][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.content"
biodb.TRACE[2024-06-08 16:04:46.529][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62f7e1534a05c51cc1431eff021df0bd.request"
biodb.TRACE[2024-06-08 16:04:46.532][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/17813.xml"
biodb.DEBUG[2024-06-08 16:04:46.534][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:46.536][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:46.537][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:46.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:46.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:46.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:46.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:46.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:46.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:46.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:46.554][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.557][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.564][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:46.565][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:46.566][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.568][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.569][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:46.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:46.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.574][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:46.576][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:46.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.578][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.580][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:46.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:46.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.585][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:46.586][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:46.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.589][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:46.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:46.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.595][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:46.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:46.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.599][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:46.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:46.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.606][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:46.607][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:46.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.610][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.611][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:46.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:46.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.617][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:46.618][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:46.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.620][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.622][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:46.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.628][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.631][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.638][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:46.639][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:46.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.641][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:46.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.661][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:46.663][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:46.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:46.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.672][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:46.673][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:46.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.675][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.677][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:46.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:46.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:46.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:46.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:46.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:46.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:46.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:46.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:46.732][self$createEntryFromContent] Accession numbers: 17813.
biodb.TRACE[2024-06-08 16:04:46.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:46.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:46.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:46.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:46.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:46.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:46.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:46.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:46.761][private$loadEntries] Creating entries from ids [1]: "30109".
biodb.DEBUG[2024-06-08 16:04:46.762][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:46.764][cch$loadFileContent] Trying to load 1 files from cache: [1]: "30109".
biodb.TRACE[2024-06-08 16:04:46.766][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:46.767][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:46.768][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:46.770][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:46.771][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:46.772][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:46.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:46.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:46.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:46.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:46.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:46.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:46.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:46.789][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.DEBUG[2024-06-08 16:04:46.792][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:46.794][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:46.795][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109".
biodb.TRACE[2024-06-08 16:04:47.165][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=30109).
biodb.DEBUG[2024-06-08 16:04:47.536][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:47.538][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.content"
biodb.TRACE[2024-06-08 16:04:47.543][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8ed09c4c418a18a426e08dad5ae6a3f9.request"
biodb.TRACE[2024-06-08 16:04:47.546][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/30109.xml"
biodb.DEBUG[2024-06-08 16:04:47.548][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:47.550][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:47.551][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:47.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:47.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:47.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:47.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:47.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:47.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:47.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:47.568][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.569][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.572][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.578][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:47.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:47.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.582][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.588][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:47.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:47.591][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.592][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.594][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:47.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.599][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:47.600][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:47.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.602][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:47.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:47.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:47.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:47.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.613][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.614][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:47.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:47.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.619][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:47.620][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:47.622][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.623][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.624][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:47.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.629][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:47.631][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:47.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.633][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.635][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:47.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:47.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.640][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.641][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.643][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.650][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:47.651][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:47.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.654][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.656][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:47.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:47.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.661][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:47.662][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:47.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.664][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:47.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:47.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.671][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:47.672][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:47.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.675][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.676][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:47.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:47.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:47.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:47.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:47.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:47.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:47.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:47.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:47.731][self$createEntryFromContent] Accession numbers: 30109.
biodb.TRACE[2024-06-08 16:04:47.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:47.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:47.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:47.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:47.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:47.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:47.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:47.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:47.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:47.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:47.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:47.761][private$loadEntries] Creating entries from ids [1]: "33275".
biodb.DEBUG[2024-06-08 16:04:47.762][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:47.764][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33275".
biodb.TRACE[2024-06-08 16:04:47.765][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:47.767][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:47.768][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:47.769][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:47.771][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:47.772][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:47.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:47.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:47.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:47.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:47.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:47.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:47.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:47.789][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.DEBUG[2024-06-08 16:04:47.792][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:47.794][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:47.795][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275".
biodb.TRACE[2024-06-08 16:04:48.163][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33275).
biodb.DEBUG[2024-06-08 16:04:48.532][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:48.535][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.content"
biodb.TRACE[2024-06-08 16:04:48.552][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e7b5440dd739854267ce8eafb6ea36b1.request"
biodb.TRACE[2024-06-08 16:04:48.555][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33275.xml"
biodb.DEBUG[2024-06-08 16:04:48.557][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:48.559][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:48.560][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:48.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:48.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:48.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:48.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:48.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:48.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:48.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:48.576][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.586][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:48.588][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:48.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:48.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:48.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.596][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:48.598][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:48.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:48.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:48.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.607][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:48.608][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:48.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.610][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:48.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:48.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.617][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:48.618][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:48.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.620][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:48.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:48.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.627][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:48.628][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:48.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.630][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:48.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.637][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:48.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:48.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:48.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:48.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.647][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.648][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.657][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:48.658][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:48.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.660][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:48.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:48.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.667][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:48.669][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:48.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.672][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:48.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:48.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.678][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:48.679][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:48.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.683][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:48.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:48.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:48.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:48.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.693][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:48.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:48.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:48.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:48.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:48.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:48.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:48.737][self$createEntryFromContent] Accession numbers: 33275.
biodb.TRACE[2024-06-08 16:04:48.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:48.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:48.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:48.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:48.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:48.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:48.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:48.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:48.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:48.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:48.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:48.766][private$loadEntries] Creating entries from ids [1]: "33277".
biodb.DEBUG[2024-06-08 16:04:48.767][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:48.769][cch$loadFileContent] Trying to load 1 files from cache: [1]: "33277".
biodb.TRACE[2024-06-08 16:04:48.770][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:48.772][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:48.773][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:48.774][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:48.776][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:48.777][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:48.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:48.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:48.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:48.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:48.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:48.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:48.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:48.793][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.DEBUG[2024-06-08 16:04:48.796][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:48.798][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:48.799][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277".
biodb.TRACE[2024-06-08 16:04:49.170][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=33277).
biodb.DEBUG[2024-06-08 16:04:49.540][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:49.542][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.content"
biodb.TRACE[2024-06-08 16:04:49.547][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9e077bb25f478950bf1d29f1e643c2aa.request"
biodb.TRACE[2024-06-08 16:04:49.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/33277.xml"
biodb.DEBUG[2024-06-08 16:04:49.552][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:49.553][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:49.555][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:49.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:49.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:49.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:49.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:49.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:49.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:49.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:49.571][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.572][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.574][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.575][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.581][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:49.583][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:49.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.585][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.586][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:49.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:49.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.591][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:49.593][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:49.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:49.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:49.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.602][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:49.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:49.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.605][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:49.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:49.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.612][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:49.613][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:49.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:49.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:49.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.622][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:49.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:49.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.628][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:49.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:49.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.633][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:49.634][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:49.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.637][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.638][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:49.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:49.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.643][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.645][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.646][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.647][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.654][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:49.655][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:49.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.659][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:49.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:49.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.664][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:49.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:49.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.668][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:49.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:49.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.675][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:49.676][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:49.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.679][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.680][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:49.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:49.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:49.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:49.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:49.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:49.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:49.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:49.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:49.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:49.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:49.746][self$createEntryFromContent] Accession numbers: 33277.
biodb.TRACE[2024-06-08 16:04:49.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:49.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:49.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:49.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:49.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:49.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:49.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:49.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:49.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:49.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:49.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:49.775][private$loadEntries] Creating entries from ids [1]: "52421".
biodb.DEBUG[2024-06-08 16:04:49.776][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:49.778][cch$loadFileContent] Trying to load 1 files from cache: [1]: "52421".
biodb.TRACE[2024-06-08 16:04:49.780][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:49.781][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:49.782][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:49.784][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:49.785][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:49.786][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:49.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:49.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:49.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:49.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:49.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:49.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:49.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:49.803][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.DEBUG[2024-06-08 16:04:49.806][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:49.808][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:49.810][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421".
biodb.TRACE[2024-06-08 16:04:50.179][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=52421).
biodb.DEBUG[2024-06-08 16:04:50.548][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:50.550][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.content"
biodb.TRACE[2024-06-08 16:04:50.555][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66d999f05cd47f00d9f023cd227b9481.request"
biodb.TRACE[2024-06-08 16:04:50.558][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52421.xml"
biodb.DEBUG[2024-06-08 16:04:50.560][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:50.562][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:50.563][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:50.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:50.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:50.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:50.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:50.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:50.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:50.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:50.581][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.584][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.591][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:50.592][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:50.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.596][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:50.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:50.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.601][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:50.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:50.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.605][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.607][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:50.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:50.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.612][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:50.613][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:50.614][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.615][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:50.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:50.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:50.623][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:50.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:50.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:50.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.633][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:50.634][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:50.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.638][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:50.639][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:50.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.643][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:50.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:50.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.649][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.652][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.658][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:50.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:50.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:50.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:50.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.669][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:50.670][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:50.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.674][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:50.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:50.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.679][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:50.680][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:50.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.683][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.684][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:50.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:50.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:50.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:50.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:50.739][self$createEntryFromContent] Accession numbers: 52421.
biodb.TRACE[2024-06-08 16:04:50.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:50.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:50.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:50.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:50.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:50.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:50.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:50.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:50.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:50.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:50.783][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:04:50.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:50.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:50.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:50.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:50.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:50.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:50.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:50.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.809][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.810][private$selectFields]
biodb.TRACE[2024-06-08 16:04:50.811][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:50.812][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:50.813][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.818][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.823][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.825][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.826][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.864][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.865][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:50.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.892][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:04:50.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:50.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:50.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:50.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:50.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:50.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:50.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:50.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.918][private$selectFields]
biodb.TRACE[2024-06-08 16:04:50.919][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:50.920][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:50.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.923][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.924][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.927][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.933][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.934][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.940][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:50.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.957][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:04:50.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:50.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:50.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:50.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:50.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:50.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:50.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:50.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.982][private$selectFields]
biodb.TRACE[2024-06-08 16:04:50.983][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:04:50.984][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:04:50.986][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.987][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.988][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.990][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.994][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:50.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:50.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:50.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:50.999][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:04:51.000][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.001][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:51.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:51.005][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:04:51.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:51.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:51.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:51.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:51.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:51.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:51.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:51.021][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:04:51.023][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:04:51.024][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:04:51.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:51.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:51.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:51.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:51.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:51.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:51.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:51.041][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:04:51.046][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:51.047][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:51.050][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-06-08 16:04:51.429][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-06-08 16:04:51.999][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:52.001][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content"
biodb.TRACE[2024-06-08 16:04:52.007][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.request"
biodb.DEBUG[2024-06-08 16:04:52.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:52.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:52.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:52.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:52.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:52.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:52.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:52.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:52.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:52.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:52.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:52.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:52.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:52.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:52.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:52.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:52.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:52.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:52.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:52.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:52.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:52.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:52.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:52.087][private$loadEntries] Creating entries from ids [1]: "65567".
biodb.DEBUG[2024-06-08 16:04:52.088][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:52.090][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65567".
biodb.TRACE[2024-06-08 16:04:52.092][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:52.093][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:52.095][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:52.096][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:52.097][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:52.099][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:52.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:52.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:52.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:52.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:52.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:52.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:52.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:52.116][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.DEBUG[2024-06-08 16:04:52.120][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:52.121][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:52.123][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567".
biodb.TRACE[2024-06-08 16:04:52.498][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65567).
biodb.DEBUG[2024-06-08 16:04:52.868][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:52.871][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.content"
biodb.TRACE[2024-06-08 16:04:52.875][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7f0d7a30f02eb1e897d8c17a3958aa76.request"
biodb.TRACE[2024-06-08 16:04:52.879][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65567.xml"
biodb.DEBUG[2024-06-08 16:04:52.881][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:52.883][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:52.884][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:52.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:52.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:52.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:52.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:52.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:52.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:52.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:52.901][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:52.903][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:52.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.905][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:52.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:52.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.912][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:52.913][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:52.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.915][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.917][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:52.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:52.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.922][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:52.923][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:52.925][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.926][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.928][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:52.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:52.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:52.935][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:52.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:52.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:52.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.944][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:52.945][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:52.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:52.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:52.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.955][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:52.957][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:52.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.961][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:52.963][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:52.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.965][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.967][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:52.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:52.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.974][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.977][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:52.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:52.984][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:52.985][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:52.986][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:52.987][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.002][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:53.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:53.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.008][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:53.009][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:53.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.013][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:53.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:53.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.019][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:53.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:53.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.022][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.024][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:53.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:53.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:53.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:53.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:53.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:53.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:53.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:53.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:53.096][self$createEntryFromContent] Accession numbers: 65567.
biodb.TRACE[2024-06-08 16:04:53.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:53.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:53.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:53.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:53.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:53.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:53.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:53.113][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:53.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:53.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:53.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:53.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:53.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:53.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:53.126][private$loadEntries] Creating entries from ids [1]: "65576".
biodb.DEBUG[2024-06-08 16:04:53.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:53.129][cch$loadFileContent] Trying to load 1 files from cache: [1]: "65576".
biodb.TRACE[2024-06-08 16:04:53.131][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:53.134][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:53.135][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:53.137][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:53.142][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:53.144][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:53.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:53.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:53.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:53.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:53.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:53.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:53.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:53.175][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.DEBUG[2024-06-08 16:04:53.178][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:53.180][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:53.182][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576".
biodb.TRACE[2024-06-08 16:04:53.549][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=65576).
biodb.DEBUG[2024-06-08 16:04:53.918][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:53.921][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.content"
biodb.TRACE[2024-06-08 16:04:53.925][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/df387492c1d7c1e81f35830307d5d903.request"
biodb.TRACE[2024-06-08 16:04:53.928][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65576.xml"
biodb.DEBUG[2024-06-08 16:04:53.930][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:53.932][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:53.933][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:53.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:53.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:53.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:53.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:53.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:53.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:53.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:53.950][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:53.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:53.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.961][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:53.962][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:53.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.964][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.966][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:53.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:53.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.971][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:53.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:53.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:53.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:53.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:53.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:53.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.986][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:53.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:53.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.992][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:53.994][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:53.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:53.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:53.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:53.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:54.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.003][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:54.004][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:54.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.008][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:54.009][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:54.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:54.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:54.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.018][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.020][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.021][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.022][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.029][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:54.030][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:54.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:54.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:54.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:54.041][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:54.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.043][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.044][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:54.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:54.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.049][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:54.051][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:54.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.053][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.055][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:54.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:54.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:54.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:54.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:54.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:54.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:54.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:54.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:54.109][self$createEntryFromContent] Accession numbers: 65576.
biodb.TRACE[2024-06-08 16:04:54.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:54.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:54.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:54.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:54.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:54.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:54.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:54.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:54.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:54.138][private$loadEntries] Creating entries from ids [1]: "66352".
biodb.DEBUG[2024-06-08 16:04:54.139][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:54.141][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66352".
biodb.TRACE[2024-06-08 16:04:54.143][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:54.144][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:54.145][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:54.147][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:54.148][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:54.149][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:54.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:54.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:54.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:54.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:54.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:54.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:54.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:54.166][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.DEBUG[2024-06-08 16:04:54.169][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:54.171][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:54.172][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352".
biodb.TRACE[2024-06-08 16:04:54.542][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66352).
biodb.DEBUG[2024-06-08 16:04:54.911][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:54.913][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.content"
biodb.TRACE[2024-06-08 16:04:54.930][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/45b0333aa11c1e7eb4af7d2d82f453d6.request"
biodb.TRACE[2024-06-08 16:04:54.933][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66352.xml"
biodb.DEBUG[2024-06-08 16:04:54.935][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:54.936][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:54.938][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:54.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:54.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:54.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:54.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:54.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:54.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:54.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:54.955][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.957][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:54.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:54.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.966][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:54.967][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:54.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:54.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:54.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.976][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:54.977][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:54.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.982][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:54.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:54.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.987][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:54.988][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:54.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:54.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:54.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:54.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:54.997][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:54.999][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:55.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:55.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:55.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.008][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:55.009][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:55.010][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.013][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:55.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:55.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.017][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:55.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:55.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.033][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:55.035][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:55.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:55.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:55.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.044][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:55.045][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:55.046][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.047][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.049][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:55.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:55.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.054][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:55.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:55.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:55.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:55.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:55.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:55.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:55.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:55.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:55.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:55.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:55.114][self$createEntryFromContent] Accession numbers: 66352.
biodb.TRACE[2024-06-08 16:04:55.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:55.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:55.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:55.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:55.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:55.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:55.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:55.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:55.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:55.143][private$loadEntries] Creating entries from ids [1]: "67567".
biodb.DEBUG[2024-06-08 16:04:55.144][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:55.146][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67567".
biodb.TRACE[2024-06-08 16:04:55.148][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:55.149][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:55.151][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:55.152][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:55.153][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:55.154][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:55.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:55.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:55.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:55.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:55.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:55.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:55.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:55.171][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.DEBUG[2024-06-08 16:04:55.174][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:55.176][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:55.177][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567".
biodb.TRACE[2024-06-08 16:04:55.547][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67567).
biodb.DEBUG[2024-06-08 16:04:55.917][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:55.920][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.content"
biodb.TRACE[2024-06-08 16:04:55.924][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ef82f494f4fdd41c2bb93aa0869ad73e.request"
biodb.TRACE[2024-06-08 16:04:55.928][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67567.xml"
biodb.DEBUG[2024-06-08 16:04:55.930][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:55.931][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:55.933][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:55.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:55.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:55.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:55.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:55.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:55.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:55.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:55.950][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:55.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:55.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.961][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:55.962][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:55.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.965][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.966][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:55.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:55.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.972][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:55.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:55.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.977][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:55.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:55.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:55.984][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:55.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:55.986][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:55.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:56.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:56.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.014][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:56.015][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:56.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.019][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:56.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:56.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.024][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:56.026][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:56.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.029][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:56.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:56.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:56.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:56.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.055][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.056][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.062][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.063][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.070][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:56.071][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:56.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.081][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:56.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:56.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.087][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:56.088][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:56.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.092][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:56.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:56.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:56.106][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:56.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.110][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:56.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:56.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:56.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:56.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:56.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:56.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:56.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:56.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:56.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:56.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:56.179][self$createEntryFromContent] Accession numbers: 67567.
biodb.TRACE[2024-06-08 16:04:56.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:56.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:56.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:56.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:56.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:56.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:56.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:56.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:56.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:56.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:56.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:56.209][private$loadEntries] Creating entries from ids [1]: "67693".
biodb.DEBUG[2024-06-08 16:04:56.210][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:56.212][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67693".
biodb.TRACE[2024-06-08 16:04:56.214][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:56.215][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:56.217][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:56.218][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:56.219][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:56.221][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:56.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:56.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:56.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:56.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:56.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:56.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:56.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:56.237][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.DEBUG[2024-06-08 16:04:56.241][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:56.242][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:56.244][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693".
biodb.TRACE[2024-06-08 16:04:56.711][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67693).
biodb.DEBUG[2024-06-08 16:04:57.082][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:57.085][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.content"
biodb.TRACE[2024-06-08 16:04:57.089][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/007181120197262f6a39eff57d7aa092.request"
biodb.TRACE[2024-06-08 16:04:57.092][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67693.xml"
biodb.DEBUG[2024-06-08 16:04:57.094][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:57.096][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:57.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:57.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:57.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:57.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:57.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:57.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:57.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:57.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:57.114][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.117][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.124][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:57.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:57.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.127][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.129][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:57.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:57.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.134][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:57.135][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:57.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.139][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:57.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:57.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.144][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:57.145][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:57.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.148][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:57.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:57.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.154][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:57.156][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:57.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.158][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:57.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:57.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:57.166][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:57.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.168][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.170][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:57.171][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:57.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.173][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.175][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:57.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:57.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.180][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.181][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.183][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.190][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:57.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:57.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:57.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:57.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.200][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:57.202][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:57.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.205][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:57.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:57.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.210][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:57.212][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:57.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:57.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:57.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:57.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:57.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:57.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:57.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:57.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:57.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:57.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:57.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:57.270][self$createEntryFromContent] Accession numbers: 67693.
biodb.TRACE[2024-06-08 16:04:57.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:57.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:57.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:57.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:57.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:57.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:57.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:57.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:57.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:57.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:57.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:57.300][private$loadEntries] Creating entries from ids [1]: "67700".
biodb.DEBUG[2024-06-08 16:04:57.301][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:57.303][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67700".
biodb.TRACE[2024-06-08 16:04:57.305][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:57.306][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:57.307][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:57.309][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:57.310][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:57.311][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:57.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:57.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:57.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:57.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:57.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:57.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:57.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:57.329][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.DEBUG[2024-06-08 16:04:57.332][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:57.334][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:57.336][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700".
biodb.TRACE[2024-06-08 16:04:57.704][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67700).
biodb.DEBUG[2024-06-08 16:04:58.076][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:58.078][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.content"
biodb.TRACE[2024-06-08 16:04:58.083][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e41afa9432b74fa2b22a0c53e84c091a.request"
biodb.TRACE[2024-06-08 16:04:58.086][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67700.xml"
biodb.DEBUG[2024-06-08 16:04:58.088][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:58.089][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:58.091][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:58.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:58.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:58.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:58.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:58.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:58.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:58.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:58.107][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.109][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.111][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.118][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:58.119][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:58.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.134][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.136][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:58.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:58.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.141][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:58.142][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:58.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.145][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:58.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:58.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.151][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:58.153][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:58.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.155][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:58.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:58.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.162][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:58.163][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:58.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:58.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:58.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.172][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:58.173][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:58.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.177][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:58.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:58.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.181][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.182][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:58.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:58.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.187][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.191][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.198][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:58.199][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:58.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.202][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:58.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:58.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.209][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:58.211][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:58.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:58.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:58.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:58.221][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:58.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.225][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:58.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:58.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:58.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:58.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:58.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:58.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:58.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:58.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:58.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:58.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:58.281][self$createEntryFromContent] Accession numbers: 67700.
biodb.TRACE[2024-06-08 16:04:58.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:58.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:58.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:58.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:58.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:58.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:58.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:58.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:58.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:58.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:58.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:58.310][private$loadEntries] Creating entries from ids [1]: "67701".
biodb.DEBUG[2024-06-08 16:04:58.311][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:58.313][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67701".
biodb.TRACE[2024-06-08 16:04:58.315][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:58.316][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:58.318][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:58.319][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:58.320][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:58.321][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:58.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:58.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:58.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:58.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:58.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:58.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:58.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:58.338][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.DEBUG[2024-06-08 16:04:58.341][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:58.343][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:58.344][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701".
biodb.TRACE[2024-06-08 16:04:58.713][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67701).
biodb.DEBUG[2024-06-08 16:04:59.081][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:04:59.083][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.content"
biodb.TRACE[2024-06-08 16:04:59.088][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ca9443fe11bfb8fe207e2797d18dbba3.request"
biodb.TRACE[2024-06-08 16:04:59.091][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67701.xml"
biodb.DEBUG[2024-06-08 16:04:59.093][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:04:59.095][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:04:59.096][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:04:59.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:59.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:59.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:59.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:59.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:59.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:59.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:04:59.112][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.114][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.116][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.122][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:59.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:59.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.126][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.128][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:04:59.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:04:59.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.133][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:59.134][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:59.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.136][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:04:59.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:04:59.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.143][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:59.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:59.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.147][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:04:59.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:04:59.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:59.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:59.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.158][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:04:59.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:04:59.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.163][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:59.165][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:04:59.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.167][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.169][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:59.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:59.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.173][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.174][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:04:59.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:04:59.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.181][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.183][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.190][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:59.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:59.192][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:04:59.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:04:59.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.201][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:59.202][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:59.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.206][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:04:59.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:04:59.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:59.212][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:59.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.216][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:04:59.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:04:59.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:59.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:59.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:59.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:59.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:04:59.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:04:59.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:04:59.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:04:59.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:59.285][self$createEntryFromContent] Accession numbers: 67701.
biodb.TRACE[2024-06-08 16:04:59.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:04:59.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:04:59.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:04:59.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:04:59.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:59.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:59.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:59.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:59.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:59.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:59.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:59.315][private$loadEntries] Creating entries from ids [1]: "67705".
biodb.DEBUG[2024-06-08 16:04:59.316][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:04:59.319][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67705".
biodb.TRACE[2024-06-08 16:04:59.320][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:04:59.322][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:04:59.323][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:04:59.324][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:04:59.326][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:04:59.327][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:04:59.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:04:59.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:04:59.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:04:59.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:04:59.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:04:59.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:04:59.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:04:59.344][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.DEBUG[2024-06-08 16:04:59.348][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:04:59.349][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:04:59.351][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705".
biodb.TRACE[2024-06-08 16:04:59.718][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67705).
biodb.DEBUG[2024-06-08 16:05:00.087][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:00.090][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.content"
biodb.TRACE[2024-06-08 16:05:00.094][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/19583a5be2f48ffe4ea86ed642cbc7df.request"
biodb.TRACE[2024-06-08 16:05:00.097][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67705.xml"
biodb.DEBUG[2024-06-08 16:05:00.099][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:00.101][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:00.102][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:00.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:00.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:00.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:00.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:00.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:00.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:00.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:00.119][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.129][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:00.130][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:00.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.133][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.134][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:00.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:00.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.140][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:00.141][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:00.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.145][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:00.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:00.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.150][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:00.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:00.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.155][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:00.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:00.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.160][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:00.162][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:00.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.164][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:00.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:00.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.171][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:00.172][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:00.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.176][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:00.177][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:00.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.180][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.181][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:00.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:00.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.187][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.188][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.190][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.197][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:00.198][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:00.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:00.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:00.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.208][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:00.209][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:00.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.213][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:00.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:00.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.218][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:00.220][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:00.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.222][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.223][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:00.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:00.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:00.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:00.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:00.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:00.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:00.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:00.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:00.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:00.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:00.277][self$createEntryFromContent] Accession numbers: 67705.
biodb.TRACE[2024-06-08 16:05:00.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:00.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:00.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:00.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:00.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:00.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:00.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:00.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:00.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:00.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:00.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:00.307][private$loadEntries] Creating entries from ids [1]: "75265".
biodb.DEBUG[2024-06-08 16:05:00.309][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:00.311][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75265".
biodb.TRACE[2024-06-08 16:05:00.312][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:00.314][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:00.315][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:00.316][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:00.318][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:00.319][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:00.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:00.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:00.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:00.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:00.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:00.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:00.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:00.336][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.DEBUG[2024-06-08 16:05:00.339][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:00.340][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:00.342][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265".
biodb.TRACE[2024-06-08 16:05:00.710][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75265).
biodb.DEBUG[2024-06-08 16:05:01.088][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:01.091][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.content"
biodb.TRACE[2024-06-08 16:05:01.095][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/d89a3a12f8b9f5e8203e72f55b0016ed.request"
biodb.TRACE[2024-06-08 16:05:01.098][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75265.xml"
biodb.DEBUG[2024-06-08 16:05:01.100][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:01.102][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:01.103][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:01.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:01.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:01.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:01.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:01.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:01.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:01.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:01.120][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.130][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:01.131][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:01.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.133][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.135][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:01.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:01.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.140][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:01.141][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:01.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.144][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.145][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:01.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:01.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.150][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:01.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:01.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.155][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:01.156][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:01.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.160][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:01.162][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:01.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.164][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.165][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:01.173][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:01.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.183][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:01.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:01.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.188][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.190][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.199][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:01.200][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:01.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.202][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:01.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:01.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.209][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:01.210][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:01.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.214][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:01.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:01.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.219][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:01.220][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:01.222][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.223][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.224][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:01.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:01.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:01.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:01.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:01.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:01.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:01.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:01.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:01.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:01.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:01.279][self$createEntryFromContent] Accession numbers: 75265.
biodb.TRACE[2024-06-08 16:05:01.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:01.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:01.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:01.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:01.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:01.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:01.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:01.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:01.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:01.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:01.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:01.333][private$loadEntries] Creating entries from ids [1]: "77370".
biodb.DEBUG[2024-06-08 16:05:01.335][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:01.337][cch$loadFileContent] Trying to load 1 files from cache: [1]: "77370".
biodb.TRACE[2024-06-08 16:05:01.338][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:01.339][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:01.341][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:01.342][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:01.343][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:01.344][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:01.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:01.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:01.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:01.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:01.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:01.358][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:01.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:01.361][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.DEBUG[2024-06-08 16:05:01.364][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:01.365][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:01.367][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370".
biodb.TRACE[2024-06-08 16:05:01.736][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=77370).
biodb.DEBUG[2024-06-08 16:05:02.107][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:02.110][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.content"
biodb.TRACE[2024-06-08 16:05:02.151][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c00fcc12163fc12434466e6319d4b9a8.request"
biodb.TRACE[2024-06-08 16:05:02.154][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/77370.xml"
biodb.DEBUG[2024-06-08 16:05:02.156][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:02.158][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:02.159][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:02.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:02.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:02.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:02.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:02.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:02.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:02.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:02.176][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.186][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:02.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:02.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.190][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.191][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:02.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:02.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.196][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:02.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:02.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.200][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:02.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:02.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:02.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:02.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.210][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:02.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:02.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.217][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:02.218][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:02.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.221][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.222][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:02.223][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:02.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.226][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.227][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:02.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:02.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.232][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.234][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.236][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.243][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:02.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:02.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:02.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:02.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.253][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:02.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:02.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.259][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:02.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:02.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.264][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:02.265][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:02.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.268][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.269][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:02.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:02.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:02.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:02.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:02.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:02.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:02.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:02.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:02.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:02.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:02.325][self$createEntryFromContent] Accession numbers: 77370.
biodb.TRACE[2024-06-08 16:05:02.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:02.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:02.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:02.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:02.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:02.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:02.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:02.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:02.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:02.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:02.355][private$loadEntries] Creating entries from ids [1]: "79074".
biodb.DEBUG[2024-06-08 16:05:02.356][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:02.358][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79074".
biodb.TRACE[2024-06-08 16:05:02.360][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:02.361][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:02.363][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:02.364][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:02.365][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:02.366][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:02.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:02.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:02.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:02.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:02.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:02.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:02.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:02.393][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.DEBUG[2024-06-08 16:05:02.396][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:02.397][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:02.399][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074".
biodb.TRACE[2024-06-08 16:05:02.771][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79074).
biodb.DEBUG[2024-06-08 16:05:03.140][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:03.143][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.content"
biodb.TRACE[2024-06-08 16:05:03.148][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/9d103521a9057f87b1d7f6dac467847d.request"
biodb.TRACE[2024-06-08 16:05:03.151][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79074.xml"
biodb.DEBUG[2024-06-08 16:05:03.153][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:03.154][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:03.156][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:03.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:03.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:03.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:03.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:03.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:03.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:03.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:03.172][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.183][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:03.184][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:03.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.188][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:03.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:03.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.193][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:03.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:03.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.197][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.198][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:03.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:03.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.203][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:03.205][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:03.206][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:03.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:03.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.213][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:03.215][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:03.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.217][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:03.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:03.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.224][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:03.225][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:03.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.228][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.229][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:03.230][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:03.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:03.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:03.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.250][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:03.252][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:03.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:03.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:03.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:03.263][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:03.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:03.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:03.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.272][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:03.274][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:03.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.276][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:03.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:03.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:03.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:03.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:03.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:03.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:03.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:03.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:03.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:03.333][self$createEntryFromContent] Accession numbers: 79074.
biodb.TRACE[2024-06-08 16:05:03.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:03.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:03.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:03.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:03.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:03.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:03.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:03.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:03.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:03.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:03.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:03.363][private$loadEntries] Creating entries from ids [1]: "79302".
biodb.DEBUG[2024-06-08 16:05:03.364][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:03.366][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79302".
biodb.TRACE[2024-06-08 16:05:03.368][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:03.369][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:03.371][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:03.372][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:03.374][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:03.376][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:03.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:03.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:03.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:03.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:03.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:03.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:03.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:03.393][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.DEBUG[2024-06-08 16:05:03.397][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:03.398][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:03.400][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302".
biodb.TRACE[2024-06-08 16:05:03.771][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79302).
biodb.DEBUG[2024-06-08 16:05:04.141][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:04.143][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.content"
biodb.TRACE[2024-06-08 16:05:04.148][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/db109891c430ecee6c4d31019e936bb4.request"
biodb.TRACE[2024-06-08 16:05:04.151][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79302.xml"
biodb.DEBUG[2024-06-08 16:05:04.153][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:04.154][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:04.156][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:04.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:04.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:04.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:04.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:04.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:04.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:04.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:04.172][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.173][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.175][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.182][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:04.183][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:04.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.186][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.187][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:04.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:04.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.192][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:04.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:04.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.197][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:04.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:04.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.202][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:04.204][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:04.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.206][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:04.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:04.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:04.214][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:04.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.216][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:04.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:04.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:04.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:04.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.226][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.227][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:04.229][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:04.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.232][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:04.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:04.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.241][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.247][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:04.248][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:04.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:04.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:04.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.257][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:04.259][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:04.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.261][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.262][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:04.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:04.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.268][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:04.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:04.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.285][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:04.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:04.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:04.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:04.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:04.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:04.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:04.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:04.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:04.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:04.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:04.341][self$createEntryFromContent] Accession numbers: 79302.
biodb.TRACE[2024-06-08 16:05:04.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:04.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:04.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:04.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:04.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:04.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:04.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:04.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:04.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:04.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:04.371][private$loadEntries] Creating entries from ids [1]: "84164".
biodb.DEBUG[2024-06-08 16:05:04.373][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:04.375][cch$loadFileContent] Trying to load 1 files from cache: [1]: "84164".
biodb.TRACE[2024-06-08 16:05:04.376][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:04.378][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:04.379][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:04.380][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:04.382][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:04.383][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:04.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:04.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:04.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:04.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:04.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:04.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:04.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:04.399][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.DEBUG[2024-06-08 16:05:04.403][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:04.404][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:04.406][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164".
biodb.TRACE[2024-06-08 16:05:04.774][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=84164).
biodb.DEBUG[2024-06-08 16:05:05.143][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:05.146][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.content"
biodb.TRACE[2024-06-08 16:05:05.151][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5878d01d3db7a255abcfdf35c60dd985.request"
biodb.TRACE[2024-06-08 16:05:05.154][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/84164.xml"
biodb.DEBUG[2024-06-08 16:05:05.156][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:05.157][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:05.159][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:05.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:05.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:05.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:05.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:05.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:05.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:05.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:05.175][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.177][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.186][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:05.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:05.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.190][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.191][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:05.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:05.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.196][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:05.198][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:05.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.200][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:05.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:05.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:05.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:05.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.212][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:05.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:05.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:05.219][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:05.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.221][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:05.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:05.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.228][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:05.229][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:05.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.232][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.233][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:05.235][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:05.236][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.237][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.239][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:05.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:05.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.244][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.254][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:05.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:05.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.259][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:05.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:05.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.264][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:05.266][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:05.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.268][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:05.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:05.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:05.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:05.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.278][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:05.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:05.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:05.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:05.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:05.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:05.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:05.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:05.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:05.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:05.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:05.335][self$createEntryFromContent] Accession numbers: 84164.
biodb.TRACE[2024-06-08 16:05:05.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:05.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:05.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:05.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:05.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:05.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:05.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:05.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:05.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:05.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:05.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:05.364][private$loadEntries] Creating entries from ids [1]: "132314".
biodb.DEBUG[2024-06-08 16:05:05.365][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:05.367][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132314".
biodb.TRACE[2024-06-08 16:05:05.369][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:05.370][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:05.372][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:05.373][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:05.374][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:05.375][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:05.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:05.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:05.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:05.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:05.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:05.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:05.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:05.392][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.DEBUG[2024-06-08 16:05:05.395][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:05.396][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:05.398][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314".
biodb.TRACE[2024-06-08 16:05:05.771][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132314).
biodb.DEBUG[2024-06-08 16:05:06.140][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:06.142][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.content"
biodb.TRACE[2024-06-08 16:05:06.147][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/faff8e4827734119a684907f214879a2.request"
biodb.TRACE[2024-06-08 16:05:06.150][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132314.xml"
biodb.DEBUG[2024-06-08 16:05:06.152][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:06.154][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:06.155][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:06.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:06.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:06.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:06.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:06.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:06.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:06.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:06.190][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.201][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:06.202][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:06.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:06.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:06.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.211][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:06.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:06.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:06.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:06.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:06.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:06.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:06.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.232][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:06.233][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:06.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.235][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:06.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:06.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.242][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:06.243][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:06.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.246][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.247][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:06.249][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:06.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.252][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:06.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:06.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.257][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.259][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.261][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.268][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:06.269][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:06.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.274][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:06.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.279][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:06.280][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:06.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.283][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.284][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:06.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:06.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.289][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:06.291][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:06.292][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.293][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.295][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:06.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:06.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:06.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:06.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:06.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:06.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:06.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:06.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:06.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:06.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:06.367][self$createEntryFromContent] Accession numbers: 132314.
biodb.TRACE[2024-06-08 16:05:06.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:06.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:06.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:06.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:06.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:06.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:06.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:06.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:06.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:06.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:06.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:06.397][private$loadEntries] Creating entries from ids [1]: "132338".
biodb.DEBUG[2024-06-08 16:05:06.398][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:06.400][cch$loadFileContent] Trying to load 1 files from cache: [1]: "132338".
biodb.TRACE[2024-06-08 16:05:06.402][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:06.404][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:06.405][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:06.407][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:06.408][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:06.409][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:06.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:06.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:06.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:06.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:06.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:06.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:06.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:06.427][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.DEBUG[2024-06-08 16:05:06.431][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:06.432][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:06.434][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338".
biodb.TRACE[2024-06-08 16:05:06.803][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=132338).
biodb.DEBUG[2024-06-08 16:05:07.176][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:07.178][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.content"
biodb.TRACE[2024-06-08 16:05:07.183][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ab2b9171a775a690a32a30e73cf2a1c.request"
biodb.TRACE[2024-06-08 16:05:07.186][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/132338.xml"
biodb.DEBUG[2024-06-08 16:05:07.188][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:07.190][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:07.191][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:07.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:07.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:07.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:07.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:07.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:07.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:07.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:07.208][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.210][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.212][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.219][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:07.220][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:07.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.222][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.224][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:07.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:07.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.229][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:07.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:07.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:07.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:07.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.286][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:07.288][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:07.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.290][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:07.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:07.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.297][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:07.298][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:07.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:07.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:07.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:07.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:07.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.311][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.312][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:07.314][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:07.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.316][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.318][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:07.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:07.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.323][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.327][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.333][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:07.336][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:07.337][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.339][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.340][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:07.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:07.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.345][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:07.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:07.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:07.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:07.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.358][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:07.360][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:07.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.362][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:07.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:07.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:07.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:07.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:07.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:07.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:07.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:07.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:07.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:07.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:07.432][self$createEntryFromContent] Accession numbers: 132338.
biodb.TRACE[2024-06-08 16:05:07.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:07.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:07.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:07.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:07.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:07.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:07.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:07.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:07.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:07.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:07.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:07.463][private$loadEntries] Creating entries from ids [1]: "139019".
biodb.DEBUG[2024-06-08 16:05:07.464][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:07.466][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139019".
biodb.TRACE[2024-06-08 16:05:07.468][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:07.469][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:07.470][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:07.472][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:07.473][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:07.474][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:07.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:07.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:07.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:07.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:07.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:07.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:07.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:07.491][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.DEBUG[2024-06-08 16:05:07.495][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:07.496][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:07.498][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019".
biodb.TRACE[2024-06-08 16:05:07.868][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139019).
biodb.DEBUG[2024-06-08 16:05:08.238][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:08.241][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.content"
biodb.TRACE[2024-06-08 16:05:08.245][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c6e6f1783364d5307c1e22caca9f3324.request"
biodb.TRACE[2024-06-08 16:05:08.251][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139019.xml"
biodb.DEBUG[2024-06-08 16:05:08.253][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:08.255][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:08.256][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:08.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:08.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:08.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:08.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:08.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:08.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:08.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:08.273][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.277][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.284][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:08.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:08.287][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.288][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:08.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:08.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.295][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:08.296][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:08.297][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.298][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:08.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:08.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:08.306][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:08.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.309][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:08.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:08.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.315][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:08.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:08.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.319][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:08.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:08.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:08.327][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:08.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.331][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:08.332][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:08.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.336][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:08.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:08.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.352][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:08.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:08.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:08.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:08.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.362][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:08.364][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:08.365][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.366][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:08.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:08.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.373][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:08.374][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:08.375][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.376][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.378][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:08.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:08.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:08.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:08.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:08.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:08.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:08.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:08.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:08.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:08.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:08.432][self$createEntryFromContent] Accession numbers: 139019.
biodb.TRACE[2024-06-08 16:05:08.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:08.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:08.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:08.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:08.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:08.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:08.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:08.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:08.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:08.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:08.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:08.461][private$loadEntries] Creating entries from ids [1]: "139367".
biodb.DEBUG[2024-06-08 16:05:08.463][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:08.465][cch$loadFileContent] Trying to load 1 files from cache: [1]: "139367".
biodb.TRACE[2024-06-08 16:05:08.466][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:08.467][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:08.469][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:08.470][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:08.471][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:08.472][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:08.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:08.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:08.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:08.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:08.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:08.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:08.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:08.535][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.DEBUG[2024-06-08 16:05:08.538][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:08.539][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:08.541][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367".
biodb.TRACE[2024-06-08 16:05:08.915][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=139367).
biodb.DEBUG[2024-06-08 16:05:09.284][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:09.287][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.content"
biodb.TRACE[2024-06-08 16:05:09.291][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ad7d38680a9a89d96fe967aa23d4180d.request"
biodb.TRACE[2024-06-08 16:05:09.294][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/139367.xml"
biodb.DEBUG[2024-06-08 16:05:09.296][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:09.298][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:09.299][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:09.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:09.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:09.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:09.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:09.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:09.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:09.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:09.341][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.343][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.352][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:09.353][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:09.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.357][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:09.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:09.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.362][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:09.363][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:09.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.366][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.367][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:09.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:09.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.373][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:09.386][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:09.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.389][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.391][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:09.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:09.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:09.398][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:09.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.400][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:09.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:09.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.408][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:09.410][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:09.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.412][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.417][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:09.418][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:09.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.421][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.422][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:09.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:09.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.427][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.431][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.437][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:09.438][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:09.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.441][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:09.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.447][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:09.449][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:09.450][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.452][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:09.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:09.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.457][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:09.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:09.460][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.461][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.462][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:09.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:09.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:09.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:09.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:09.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:09.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:09.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:09.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:09.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:09.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:09.518][self$createEntryFromContent] Accession numbers: 139367.
biodb.TRACE[2024-06-08 16:05:09.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:09.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:09.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:09.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:09.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:09.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:09.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:09.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:09.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:09.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:09.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:09.548][private$loadEntries] Creating entries from ids [1]: "145029".
biodb.DEBUG[2024-06-08 16:05:09.549][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:09.551][cch$loadFileContent] Trying to load 1 files from cache: [1]: "145029".
biodb.TRACE[2024-06-08 16:05:09.552][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:09.554][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:09.555][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:09.556][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:09.558][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:09.559][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:09.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:09.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:09.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:09.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:09.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:09.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:09.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:09.576][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.DEBUG[2024-06-08 16:05:09.579][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:09.580][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:09.582][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029".
biodb.TRACE[2024-06-08 16:05:09.952][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=145029).
biodb.DEBUG[2024-06-08 16:05:10.322][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:10.325][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.content"
biodb.TRACE[2024-06-08 16:05:10.330][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/6db4642c7bdbd10dc105b3470394caa5.request"
biodb.TRACE[2024-06-08 16:05:10.333][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/145029.xml"
biodb.DEBUG[2024-06-08 16:05:10.335][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:10.337][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:10.339][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:10.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:10.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:10.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:10.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:10.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:10.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:10.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:10.356][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.357][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.366][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:10.368][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:10.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.370][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.372][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:10.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:10.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.377][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:10.378][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:10.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.381][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.382][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:10.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:10.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.388][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:10.389][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:10.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.393][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:10.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:10.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.399][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:10.400][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:10.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:10.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:10.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.409][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:10.411][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:10.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.414][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:10.416][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:10.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.418][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.420][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:10.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:10.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.428][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.429][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.435][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:10.437][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:10.438][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.439][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.441][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:10.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:10.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.446][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:10.447][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:10.448][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.450][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:10.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:10.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.456][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:10.457][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:10.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.460][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.461][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:10.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:10.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:10.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:10.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:10.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:10.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:10.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:10.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:10.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:10.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:10.518][self$createEntryFromContent] Accession numbers: 145029.
biodb.TRACE[2024-06-08 16:05:10.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:10.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:10.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:10.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:10.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:10.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:10.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:10.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:10.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:10.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:10.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:10.558][private$loadEntries] Creating entries from ids [1]: "173077".
biodb.DEBUG[2024-06-08 16:05:10.560][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:10.562][cch$loadFileContent] Trying to load 1 files from cache: [1]: "173077".
biodb.TRACE[2024-06-08 16:05:10.563][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:10.565][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:10.585][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:10.587][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:10.620][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:10.621][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:10.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:10.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:10.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:10.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:10.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:10.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:10.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:10.638][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.DEBUG[2024-06-08 16:05:10.641][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:10.642][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:10.644][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077".
biodb.TRACE[2024-06-08 16:05:11.017][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=173077).
biodb.DEBUG[2024-06-08 16:05:11.497][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:11.502][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.content"
biodb.TRACE[2024-06-08 16:05:11.510][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/337fedbe654250105ac3b03683794b9b.request"
biodb.TRACE[2024-06-08 16:05:11.515][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/173077.xml"
biodb.DEBUG[2024-06-08 16:05:11.519][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:11.522][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:11.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:11.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:11.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:11.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:11.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:11.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:11.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:11.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:11.542][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.543][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.553][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:11.554][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:11.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.556][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.558][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:11.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:11.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.563][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:11.564][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:11.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.566][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:11.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:11.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.573][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:11.574][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:11.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:11.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:11.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.582][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:11.584][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:11.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.586][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:11.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:11.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.592][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:11.594][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:11.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.596][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.597][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:11.599][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:11.600][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.601][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.603][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:11.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:11.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.608][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.618][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:11.619][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:11.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.622][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:11.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:11.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.629][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:11.630][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:11.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.632][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:11.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:11.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.639][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:11.640][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:11.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.644][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:11.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:11.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:11.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:11.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:11.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:11.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:11.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:11.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:11.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:11.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:11.698][self$createEntryFromContent] Accession numbers: 173077.
biodb.TRACE[2024-06-08 16:05:11.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:11.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:11.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:11.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:11.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:11.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:11.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:11.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:11.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:11.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:11.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:11.752][private$loadEntries] Creating entries from ids [1]: "365445".
biodb.DEBUG[2024-06-08 16:05:11.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:11.755][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365445".
biodb.TRACE[2024-06-08 16:05:11.757][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:11.758][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:11.760][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:11.761][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:11.762][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:11.763][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:11.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:11.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:11.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:11.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:11.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:11.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:11.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:11.782][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.DEBUG[2024-06-08 16:05:11.786][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:11.787][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:11.789][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445".
biodb.TRACE[2024-06-08 16:05:12.160][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=365445).
biodb.DEBUG[2024-06-08 16:05:12.538][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:12.540][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.content"
biodb.TRACE[2024-06-08 16:05:12.594][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/026ecb4be6491f40bcefe5cdf8425328.request"
biodb.TRACE[2024-06-08 16:05:12.598][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365445.xml"
biodb.DEBUG[2024-06-08 16:05:12.600][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:12.602][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:12.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:12.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:12.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:12.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:12.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:12.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:12.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:12.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:12.620][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.621][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.624][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.630][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:12.632][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:12.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.634][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.636][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:12.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:12.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.641][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:12.642][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:12.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.646][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:12.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:12.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:12.653][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:12.654][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.655][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:12.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:12.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:12.663][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:12.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:12.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:12.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.672][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:12.673][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:12.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.677][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:12.679][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:12.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.682][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:12.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:12.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.689][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.704][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.711][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:12.713][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:12.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.715][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:12.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:12.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.723][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:12.724][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:12.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.726][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:12.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.733][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:12.734][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:12.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.737][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:12.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:12.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:12.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:12.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:12.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:12.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:12.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:12.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:12.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:12.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:12.812][self$createEntryFromContent] Accession numbers: 365445.
biodb.TRACE[2024-06-08 16:05:12.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:12.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:12.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:12.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:12.831][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:12.832][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:12.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:12.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:12.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:12.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:12.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:12.848][private$loadEntries] Creating entries from ids [1]: "32151".
biodb.DEBUG[2024-06-08 16:05:12.849][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:12.851][cch$loadFileContent] Trying to load 1 files from cache: [1]: "32151".
biodb.TRACE[2024-06-08 16:05:12.853][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:12.854][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:12.855][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:12.857][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:12.858][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:12.859][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:12.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:12.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:12.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:12.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:12.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:12.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:12.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:12.876][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.DEBUG[2024-06-08 16:05:12.879][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:12.881][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:12.883][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151".
biodb.TRACE[2024-06-08 16:05:13.252][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=32151).
biodb.DEBUG[2024-06-08 16:05:13.622][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:13.624][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.content"
biodb.TRACE[2024-06-08 16:05:13.665][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/094c4c16dd654c0e11594a0cd5a42217.request"
biodb.TRACE[2024-06-08 16:05:13.669][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32151.xml"
biodb.DEBUG[2024-06-08 16:05:13.670][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:13.672][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:13.673][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:13.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:13.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:13.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:13.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:13.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:13.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:13.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:13.690][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.691][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.694][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.700][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:13.702][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:13.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.704][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.706][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:13.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:13.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.711][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:13.712][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:13.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.715][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:13.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:13.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.722][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:13.723][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:13.724][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.725][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.727][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:13.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:13.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.732][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:13.733][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:13.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:13.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:13.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:13.744][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:13.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.746][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.748][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:13.749][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:13.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.752][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.753][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:13.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:13.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.758][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.760][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.761][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.762][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.770][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:13.772][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:13.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:13.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:13.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.831][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:13.843][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:13.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.846][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.853][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:13.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:13.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:13.860][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:13.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.874][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:13.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:13.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:13.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:13.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:13.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:13.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:13.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:13.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:13.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:13.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:13.937][self$createEntryFromContent] Accession numbers: 32151.
biodb.TRACE[2024-06-08 16:05:13.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.943][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:13.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:13.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:13.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:13.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:13.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:13.963][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:13.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:13.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:13.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:13.969][private$loadEntries] Creating entries from ids [1]: "67676".
biodb.DEBUG[2024-06-08 16:05:13.970][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:13.972][cch$loadFileContent] Trying to load 1 files from cache: [1]: "67676".
biodb.TRACE[2024-06-08 16:05:13.974][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:13.975][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:13.976][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:13.978][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:13.979][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:13.980][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:13.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:13.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:13.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:13.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:13.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:13.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:13.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:13.997][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.DEBUG[2024-06-08 16:05:14.011][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:14.012][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:14.014][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676".
biodb.TRACE[2024-06-08 16:05:14.384][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=67676).
biodb.DEBUG[2024-06-08 16:05:14.757][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:14.759][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.content"
biodb.TRACE[2024-06-08 16:05:14.764][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f87eff9f669415e5528b4d9281ce70e2.request"
biodb.TRACE[2024-06-08 16:05:14.767][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/67676.xml"
biodb.DEBUG[2024-06-08 16:05:14.769][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:14.771][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:14.772][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:14.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:14.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:14.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:14.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:14.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:14.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:14.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:14.789][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.790][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.793][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.799][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:14.801][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:14.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.803][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.804][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:14.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:14.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.809][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:14.811][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:14.812][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.813][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:14.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:14.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.820][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:14.821][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:14.822][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.823][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:14.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:14.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.830][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:14.831][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:14.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:14.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:14.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.840][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:14.842][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:14.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.846][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:14.847][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:14.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.849][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.851][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:14.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:14.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.856][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.858][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.867][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:14.868][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:14.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:14.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:14.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.878][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:14.879][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:14.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.883][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:14.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:14.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.888][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:14.889][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:14.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:14.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:14.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:14.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:14.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:14.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:14.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:14.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:14.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:14.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:14.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:14.950][self$createEntryFromContent] Accession numbers: 67676.
biodb.TRACE[2024-06-08 16:05:14.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:14.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:14.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:14.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:14.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:14.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:14.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:14.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:14.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:14.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:14.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:14.980][private$loadEntries] Creating entries from ids [1]: "69690".
biodb.DEBUG[2024-06-08 16:05:14.981][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:14.983][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69690".
biodb.TRACE[2024-06-08 16:05:14.985][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:14.986][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:14.987][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:14.989][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:14.990][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:14.991][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:14.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:14.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:14.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:15.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:15.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:15.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:15.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:15.008][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.DEBUG[2024-06-08 16:05:15.012][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:15.013][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:15.015][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690".
biodb.TRACE[2024-06-08 16:05:15.388][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69690).
biodb.DEBUG[2024-06-08 16:05:15.757][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:15.759][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.content"
biodb.TRACE[2024-06-08 16:05:15.764][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4ce43467f7e4550d502ff0cc79c06666.request"
biodb.TRACE[2024-06-08 16:05:15.767][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69690.xml"
biodb.DEBUG[2024-06-08 16:05:15.769][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:15.771][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:15.772][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:15.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:15.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:15.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:15.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:15.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:15.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:15.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:15.790][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.792][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.795][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.805][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:15.806][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:15.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.809][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:15.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.816][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:15.817][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:15.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.821][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:15.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:15.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:15.828][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:15.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:15.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:15.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.837][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:15.839][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:15.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.841][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:15.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:15.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.848][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:15.850][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:15.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.853][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.854][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:15.856][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:15.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.858][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.860][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:15.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:15.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.865][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.868][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.869][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.876][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:15.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:15.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.880][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:15.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:15.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.887][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:15.889][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:15.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.893][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:15.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.898][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:15.900][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:15.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.902][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:15.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:15.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:15.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:15.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:15.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:15.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:15.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:15.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:15.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:15.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:15.976][self$createEntryFromContent] Accession numbers: 69690.
biodb.TRACE[2024-06-08 16:05:15.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:15.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:15.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:15.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:15.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:15.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:15.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:16.001][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:16.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:16.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:16.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:16.006][private$loadEntries] Creating entries from ids [1]: "69734".
biodb.DEBUG[2024-06-08 16:05:16.008][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:16.010][cch$loadFileContent] Trying to load 1 files from cache: [1]: "69734".
biodb.TRACE[2024-06-08 16:05:16.011][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:16.013][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:16.014][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:16.015][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:16.017][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:16.018][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:16.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:16.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:16.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:16.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:16.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:16.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:16.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:16.035][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.DEBUG[2024-06-08 16:05:16.038][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:16.040][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:16.042][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734".
biodb.TRACE[2024-06-08 16:05:16.412][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=69734).
biodb.DEBUG[2024-06-08 16:05:16.781][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:16.783][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.content"
biodb.TRACE[2024-06-08 16:05:16.788][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/3ed7db8dba94801a8856f9bde313afe1.request"
biodb.TRACE[2024-06-08 16:05:16.792][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/69734.xml"
biodb.DEBUG[2024-06-08 16:05:16.795][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:16.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:16.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:16.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:16.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:16.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:16.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:16.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:16.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:16.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:16.816][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.820][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.826][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:16.828][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:16.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.832][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:16.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:16.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.837][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:16.838][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:16.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.842][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:16.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:16.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.847][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:16.849][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:16.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:16.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:16.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.858][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:16.859][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:16.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.862][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:16.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:16.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.869][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:16.870][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:16.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.873][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.874][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:16.875][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:16.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.878][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:16.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:16.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.884][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.886][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.887][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.888][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.895][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:16.897][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:16.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.899][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:16.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:16.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:16.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:16.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.910][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.912][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:16.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:16.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.917][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:16.918][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:16.920][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.921][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.922][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:16.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:16.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:16.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:16.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:16.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:16.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:16.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:16.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:16.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:16.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:16.978][self$createEntryFromContent] Accession numbers: 69734.
biodb.TRACE[2024-06-08 16:05:16.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:16.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:16.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:16.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:16.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:16.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:16.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:17.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:17.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:17.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:17.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:17.007][private$loadEntries] Creating entries from ids [1]: "79978".
biodb.DEBUG[2024-06-08 16:05:17.008][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:17.010][cch$loadFileContent] Trying to load 1 files from cache: [1]: "79978".
biodb.TRACE[2024-06-08 16:05:17.012][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:17.013][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:17.015][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:17.016][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:17.017][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:17.018][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:17.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:17.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:17.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:17.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:17.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:17.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:17.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:17.035][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.DEBUG[2024-06-08 16:05:17.039][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:17.040][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:17.042][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978".
biodb.TRACE[2024-06-08 16:05:17.413][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=79978).
biodb.DEBUG[2024-06-08 16:05:17.784][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:17.787][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.content"
biodb.TRACE[2024-06-08 16:05:17.791][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/fb887d003d6fc3b4aa767483d261b31c.request"
biodb.TRACE[2024-06-08 16:05:17.794][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/79978.xml"
biodb.DEBUG[2024-06-08 16:05:17.796][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:17.797][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:17.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:17.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:17.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:17.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:17.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:17.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:17.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:17.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:17.828][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.832][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.838][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:17.839][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:17.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.841][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.843][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:17.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:17.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.848][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:17.849][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:17.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.853][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:17.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:17.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.857][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:17.859][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:17.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.863][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:17.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:17.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:17.869][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:17.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:17.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:17.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.877][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:17.879][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:17.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.882][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:17.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:17.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.887][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:17.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:17.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.893][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:17.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:17.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.898][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.899][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.900][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:17.909][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:17.910][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.912][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.913][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:17.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:17.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.918][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:17.920][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:17.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.922][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.924][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:17.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:17.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:17.930][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:17.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.934][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:17.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:17.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:17.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:17.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:17.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:17.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:17.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:17.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:17.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:17.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:17.988][self$createEntryFromContent] Accession numbers: 79978.
biodb.TRACE[2024-06-08 16:05:17.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:17.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:17.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:17.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:18.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:18.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:18.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:18.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:18.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:18.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:18.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:18.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:18.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:18.016][private$loadEntries] Creating entries from ids [1]: "88771".
biodb.DEBUG[2024-06-08 16:05:18.017][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-06-08 16:05:18.019][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88771".
biodb.TRACE[2024-06-08 16:05:18.020][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-06-08 16:05:18.022][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-06-08 16:05:18.023][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-06-08 16:05:18.025][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-06-08 16:05:18.026][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-06-08 16:05:18.047][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-06-08 16:05:18.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:18.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:18.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:18.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:18.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:18.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:18.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:18.088][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.DEBUG[2024-06-08 16:05:18.092][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-06-08 16:05:18.093][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-06-08 16:05:18.095][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771".
biodb.TRACE[2024-06-08 16:05:18.467][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88771).
biodb.DEBUG[2024-06-08 16:05:18.843][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-06-08 16:05:18.845][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.content"
biodb.TRACE[2024-06-08 16:05:18.850][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f96325cdb7f39b42d0ab67a7fc41aced.request"
biodb.TRACE[2024-06-08 16:05:18.853][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88771.xml"
biodb.DEBUG[2024-06-08 16:05:18.856][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-06-08 16:05:18.857][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-06-08 16:05:18.858][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-06-08 16:05:18.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:18.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:18.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:18.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:18.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:18.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:18.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:18.893][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:18.894][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:18.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.896][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:18.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:18.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.903][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:18.905][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:18.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.907][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.909][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:18.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:18.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.914][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:18.915][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:18.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:18.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:18.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:18.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:18.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:18.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:18.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.935][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:18.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:18.937][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:18.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:18.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.945][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:18.946][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:18.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.949][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.951][ef$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:18.952][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:18.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.956][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-06-08 16:05:18.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:18.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:18.963][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:18.964][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.965][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:18.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:18.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.974][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:18.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:18.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.981][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:18.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:18.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.988][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:18.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:18.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.993][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:18.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-06-08 16:05:18.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:18.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:18.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.000][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:19.001][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:19.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.003][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.005][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:19.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:19.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:19.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:19.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.071][self$createEntryFromContent] Accession numbers: 88771.
biodb.TRACE[2024-06-08 16:05:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.116][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.146][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:19.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.172][private$selectFields]
biodb.TRACE[2024-06-08 16:05:19.173][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:19.174][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:19.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.177][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.180][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.188][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.194][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:19.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.210][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:05:19.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.236][private$selectFields]
biodb.TRACE[2024-06-08 16:05:19.237][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:19.238][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:19.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.241][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.244][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.252][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.258][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.275][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-06-08 16:05:19.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.290][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.320][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.322][private$selectFields]
biodb.TRACE[2024-06-08 16:05:19.323][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:19.324][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:19.326][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.331][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.337][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.338][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.339][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.341][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.343][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.344][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:19.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.361][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-06-08 16:05:19.362][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:19.363][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:19.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:19.382][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:19.387][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:19.389][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-06-08 16:05:19.390][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:19.392][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-06-08 16:05:19.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.413][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.527][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:19.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.543][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.553][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.555][private$selectFields]
biodb.TRACE[2024-06-08 16:05:19.556][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:19.557][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:19.559][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.560][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.561][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.569][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.571][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.578][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:19.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.594][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-06-08 16:05:19.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.607][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.620][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.621][private$selectFields]
biodb.TRACE[2024-06-08 16:05:19.622][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:19.623][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:19.625][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.626][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.627][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.630][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.631][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.632][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.633][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.635][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.636][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.637][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.638][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.642][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.644][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:19.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.660][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-06-08 16:05:19.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.687][private$selectFields]
biodb.TRACE[2024-06-08 16:05:19.688][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:19.689][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:19.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.696][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.697][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.701][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.703][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:19.704][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.706][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.707][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.708][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.709][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:19.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:19.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.726][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:05:19.727][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:19.729][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:19.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.819][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.821][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:19.825][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:19.830][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:19.834][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-06-08 16:05:19.836][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:19.838][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-06-08 16:05:19.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.911][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:19.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:19.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:19.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:19.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:19.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:19.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:19.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:19.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:19.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:19.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:19.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.050][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:20.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.075][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.076][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.077][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.080][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.085][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.091][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.098][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.114][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-06-08 16:05:20.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.139][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.140][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.142][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.144][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.148][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.152][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.155][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.156][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.157][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.160][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.184][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.200][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:05:20.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.234][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.236][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.237][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.238][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.241][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.244][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.247][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.251][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.252][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.259][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.277][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [34764].
biodb.DEBUG[2024-06-08 16:05:20.278][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:20.280][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:20.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:20.297][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:20.301][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:20.303][cch$loadFileContent] Trying to load 1 files from cache: [1]: "365d4ea5e0e90826806fec708da6c9ab".
biodb.TRACE[2024-06-08 16:05:20.305][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:20.307][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/365d4ea5e0e90826806fec708da6c9ab.content".
biodb.DEBUG[2024-06-08 16:05:20.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.437][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:20.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.462][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.463][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.464][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.466][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.469][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.471][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.475][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.477][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.482][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.483][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.484][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.485][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.502][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [2535].
biodb.DEBUG[2024-06-08 16:05:20.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.528][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.529][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.530][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.533][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.534][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.541][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.543][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.544][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.545][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.547][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.550][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.567][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:05:20.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.592][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.593][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.594][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.596][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.602][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.603][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.608][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.609][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.610][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.614][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.615][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.632][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [16587].
biodb.DEBUG[2024-06-08 16:05:20.633][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:20.634][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:20.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:20.652][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=409.9*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:20.656][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:20.658][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7b0416ab2d5cbf869f248000c039a8e8".
biodb.TRACE[2024-06-08 16:05:20.659][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:20.661][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7b0416ab2d5cbf869f248000c039a8e8.content".
biodb.DEBUG[2024-06-08 16:05:20.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.675][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:20.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:20.857][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:20.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.885][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.892][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.893][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.894][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.900][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.905][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.907][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.908][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.914][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.931][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [31303].
biodb.DEBUG[2024-06-08 16:05:20.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:20.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:20.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:20.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:20.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:20.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:20.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:20.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.965][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.966][private$selectFields]
biodb.TRACE[2024-06-08 16:05:20.967][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:20.968][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:20.970][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.971][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.972][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.976][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.977][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.982][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:20.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:20.995][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:20.996][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:20.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:20.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.016][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [81767].
biodb.DEBUG[2024-06-08 16:05:21.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.051][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.052][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.053][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.065][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.068][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.074][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.096][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [131378].
biodb.DEBUG[2024-06-08 16:05:21.097][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:21.099][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:21.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:21.146][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:21.150][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:21.152][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-08 16:05:21.153][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:21.155][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-08 16:05:21.159][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:21.164][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:21.166][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-08 16:05:21.167][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:21.169][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-08 16:05:21.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:21.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:21.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.385][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:21.417][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:21.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.457][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.459][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.460][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.465][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.466][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.469][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.471][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.474][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.475][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.476][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.479][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.480][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.497][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:05:21.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.531][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.532][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.533][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.534][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.536][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.540][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.553][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.571][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:05:21.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.597][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.598][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.599][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.603][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.607][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.612][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.613][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.616][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.618][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.620][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:05:21.638][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:21.639][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:21.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:21.658][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:21.662][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:21.664][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-06-08 16:05:21.666][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:21.667][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-06-08 16:05:21.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:21.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:21.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:21.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:21.757][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:21.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.783][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.784][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.785][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.787][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.793][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.797][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.798][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.800][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.803][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.805][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.807][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.824][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:05:21.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.850][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.851][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.852][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.854][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.858][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.859][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.863][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.864][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.867][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.873][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.890][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-06-08 16:05:21.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:21.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.915][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.916][private$selectFields]
biodb.TRACE[2024-06-08 16:05:21.924][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:21.925][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:21.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.930][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.939][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.940][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:21.941][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.944][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.945][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.946][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:21.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:21.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:21.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:21.963][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-06-08 16:05:21.964][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:21.966][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:21.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:21.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:21.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:21.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:21.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:21.983][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:21.988][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:21.989][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-06-08 16:05:21.991][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:21.992][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-06-08 16:05:21.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:21.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:21.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.081][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:22.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.108][private$selectFields]
biodb.TRACE[2024-06-08 16:05:22.110][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:22.111][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:22.112][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.115][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.117][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.120][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.123][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.124][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.129][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.131][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.147][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-06-08 16:05:22.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.173][private$selectFields]
biodb.TRACE[2024-06-08 16:05:22.174][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:22.175][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:22.177][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.187][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.189][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.195][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:22.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.212][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [64199].
biodb.DEBUG[2024-06-08 16:05:22.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.238][private$selectFields]
biodb.TRACE[2024-06-08 16:05:22.239][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:22.240][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:22.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.246][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.247][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.250][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.252][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.253][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.260][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:22.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.276][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [65648].
biodb.DEBUG[2024-06-08 16:05:22.277][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:22.279][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:22.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:22.320][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.3*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:22.324][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:22.326][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26eec570aadd234892b573eb0777bd78".
biodb.TRACE[2024-06-08 16:05:22.327][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:22.329][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26eec570aadd234892b573eb0777bd78.content".
biodb.DEBUG[2024-06-08 16:05:22.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.398][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.554][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.610][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:22.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.635][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.636][private$selectFields]
biodb.TRACE[2024-06-08 16:05:22.638][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:22.639][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:22.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.651][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.652][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.655][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.659][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:22.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.675][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-06-08 16:05:22.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.701][private$selectFields]
biodb.TRACE[2024-06-08 16:05:22.702][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:22.703][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:22.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.706][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.707][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.709][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.714][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.716][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.717][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.718][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.722][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.723][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.740][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-06-08 16:05:22.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.765][private$selectFields]
biodb.TRACE[2024-06-08 16:05:22.766][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:22.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:22.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.773][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.774][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.775][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.776][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.778][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.779][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.781][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:22.782][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.796][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:22.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:22.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.813][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-06-08 16:05:22.814][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:22.815][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:22.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:22.832][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.2*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:22.837][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:22.838][cch$loadFileContent] Trying to load 1 files from cache: [1]: "20c224089a82bbffabd2e7dbc67cfae3".
biodb.TRACE[2024-06-08 16:05:22.840][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:22.842][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/20c224089a82bbffabd2e7dbc67cfae3.content".
biodb.DEBUG[2024-06-08 16:05:22.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:22.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:22.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:22.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:22.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:22.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:22.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:22.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:22.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:22.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.135][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.136][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.649][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.715][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.717][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:23.794][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:23.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.822][private$selectFields]
biodb.TRACE[2024-06-08 16:05:23.823][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:23.824][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:23.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.831][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.832][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.836][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.838][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.839][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.840][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.841][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.868][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.870][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:23.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.886][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4781].
biodb.DEBUG[2024-06-08 16:05:23.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.921][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.922][private$selectFields]
biodb.TRACE[2024-06-08 16:05:23.923][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:23.925][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:23.926][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.942][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.944][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.945][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:23.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.955][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.956][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:23.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:23.979][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [91601].
biodb.DEBUG[2024-06-08 16:05:23.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:23.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:23.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:23.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:23.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:23.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:23.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:23.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:23.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:23.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.007][private$selectFields]
biodb.TRACE[2024-06-08 16:05:24.008][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:24.009][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:24.011][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.012][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.013][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.017][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.020][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.021][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.023][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.030][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:24.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.047][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [95147].
biodb.DEBUG[2024-06-08 16:05:24.048][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:24.049][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:24.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:24.067][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.1*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:24.071][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:24.073][cch$loadFileContent] Trying to load 1 files from cache: [1]: "a035d13a630066423fab6713592c5e52".
biodb.TRACE[2024-06-08 16:05:24.074][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:24.076][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a035d13a630066423fab6713592c5e52.content".
biodb.DEBUG[2024-06-08 16:05:24.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.113][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.187][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.205][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:24.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.232][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.233][private$selectFields]
biodb.TRACE[2024-06-08 16:05:24.234][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:24.235][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:24.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.242][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.248][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.249][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.252][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.256][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:24.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.272][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [636].
biodb.DEBUG[2024-06-08 16:05:24.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.297][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.298][private$selectFields]
biodb.TRACE[2024-06-08 16:05:24.299][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:24.300][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:24.301][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.302][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.305][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.311][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.312][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.313][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.315][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.318][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.319][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:24.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.330][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.335][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [3014].
biodb.DEBUG[2024-06-08 16:05:24.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.362][private$selectFields]
biodb.TRACE[2024-06-08 16:05:24.363][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:24.364][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:24.365][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.371][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.389][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.391][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.394][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.396][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-06-08 16:05:24.397][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.398][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.399][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.401][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.402][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-06-08 16:05:24.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.418][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [7799].
biodb.DEBUG[2024-06-08 16:05:24.420][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:24.425][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:05:24.450][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:24.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:24.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.455][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:24.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:24.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.464][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:24.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:24.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:05:24.477][biodb::testThat]
biodb.INFO [2024-06-08 16:05:24.479][biodb::testThat] Running test function  test_annotateMzValues_additional_fields  (" Additional fields are accepted in annotateMzValues() ").
biodb.INFO [2024-06-08 16:05:24.480][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-08 16:05:24.481][biodb::testThat]
biodb.TRACE[2024-06-08 16:05:24.485][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:05:24.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:05:24.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.491][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:05:24.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:05:24.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.496][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-06-08 16:05:24.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-06-08 16:05:24.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:24.581][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:24.585][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:24.587][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:05:24.588][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:24.590][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:05:24.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.631][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:24.635][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:24.636][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:05:24.638][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:24.640][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:05:24.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:24.698][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:24.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:24.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:24.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:24.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:24.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:24.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:24.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:24.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:24.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:24.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:24.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:24.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:24.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:24.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.729][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:24.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:24.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:24.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:24.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:24.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:24.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.754][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:24.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:24.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:24.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:24.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.775][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.780][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.811][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:24.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:24.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:24.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:24.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:24.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:24.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:24.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.836][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:24.837][private$selectFields]
biodb.TRACE[2024-06-08 16:05:24.838][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:24.840][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:24.841][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:24.842][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:24.843][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:24.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.846][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.847][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:24.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:24.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.857][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:24.858][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:24.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.862][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:24.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:24.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.865][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.866][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.868][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.870][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.871][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.875][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.876][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.878][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.880][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.882][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.883][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.885][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.887][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.890][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.892][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:24.893][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:24.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.896][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.927][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:24.929][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:24.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.933][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:24.935][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:24.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.939][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:24.940][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:24.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.943][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.944][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:24.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.949][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:24.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:24.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.953][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.954][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:24.955][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:24.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.959][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.960][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:24.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.963][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:24.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.968][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.969][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.970][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:24.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.973][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.974][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:24.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.979][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:24.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.983][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.984][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:24.985][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:24.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.989][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:24.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:24.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:24.993][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:24.994][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:24.998][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:24.999][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.001][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.005][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.006][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.007][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.008][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.010][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.012][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.015][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.016][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.018][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.023][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.027][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.028][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.032][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.036][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.211][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.213][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.216][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.218][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.221][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.222][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.226][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:25.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.243][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.248][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.252][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.272][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.277][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.282][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.347][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.352][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.357][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.367][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.372][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.400][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.433][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.439][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.453][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2024-06-08 16:05:25.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:25.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:25.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:25.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:25.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:25.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:25.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:25.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.479][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.484][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.500][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.521][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.532][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.538][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.577][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.582][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.592][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.597][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:25.598][private$selectFields]
biodb.TRACE[2024-06-08 16:05:25.599][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:25.600][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:25.602][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:25.603][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.604][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.606][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.607][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.609][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.616][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.617][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.619][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.621][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.622][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.623][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.626][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.628][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.629][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.630][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.632][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.633][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.635][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.637][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.642][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.643][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.644][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.645][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.647][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.649][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.653][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.654][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.658][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.659][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.663][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.667][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.668][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.669][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.678][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.682][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.688][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.690][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.691][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.692][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.696][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.699][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.701][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.702][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.704][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.705][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.709][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.710][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.712][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.714][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.715][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.716][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.719][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.720][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.721][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.724][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.725][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:25.726][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:25.727][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.729][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.731][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.732][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.734][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.739][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.742][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.743][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.746][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.747][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.748][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.750][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.751][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.752][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.753][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.756][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.762][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.763][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.765][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.766][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.767][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.768][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.770][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.771][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.772][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.773][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.776][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.777][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.781][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.782][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:25.783][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:25.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.786][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.787][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:25.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:25.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:25.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.804][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.809][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.814][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:25.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:25.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:25.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.834][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:25.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:25.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:25.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:25.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.919][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:25.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.929][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.934][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.939][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:25.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:25.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:25.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.975][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.985][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:25.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:25.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:25.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:25.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:25.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.005][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.016][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.029][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-06-08 16:05:26.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.055][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.060][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.076][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.108][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.113][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.143][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.162][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.167][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.172][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:26.173][private$selectFields]
biodb.TRACE[2024-06-08 16:05:26.174][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:26.175][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:26.177][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:26.178][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.179][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.183][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.184][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.185][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.187][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.190][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.193][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.197][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.198][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.199][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.203][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.204][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.206][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.208][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.209][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.212][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.214][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.216][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.219][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.221][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.251][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.252][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.255][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.256][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.259][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.260][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.261][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.262][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.263][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.265][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.266][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.270][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.271][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.274][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.276][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.277][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.278][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.279][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.281][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.284][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.286][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.287][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.289][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.290][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.292][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.293][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.294][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.299][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.300][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.302][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.303][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.304][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.305][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.306][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.308][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.309][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.310][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.311][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.312][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.314][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.315][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.316][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.317][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.319][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.320][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.321][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.322][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.324][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.325][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:26.326][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:26.327][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.329][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.331][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.332][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.337][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.341][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.342][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.346][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.356][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.358][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.361][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.363][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.365][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.366][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.368][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.370][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.371][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.373][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.376][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.378][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.380][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.381][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:26.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.398][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.408][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.429][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.435][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.440][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.509][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.514][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.520][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.546][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.554][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.559][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.571][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:26.573][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:26.574][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:26.578][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:26.595][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:26.599][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:26.601][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-06-08 16:05:26.602][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:26.604][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-06-08 16:05:26.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:26.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:26.676][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:26.680][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:26.682][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-06-08 16:05:26.683][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:26.685][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-06-08 16:05:26.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:26.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:26.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:26.820][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:26.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:26.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:26.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:26.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:26.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:26.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:26.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:26.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.848][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.853][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.872][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.878][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:26.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:26.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:26.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:26.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.905][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:26.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:26.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:26.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.937][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.943][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:26.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.949][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.955][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:26.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:26.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.963][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:26.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:26.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.975][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:26.976][private$selectFields]
biodb.TRACE[2024-06-08 16:05:26.978][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:26.979][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:26.980][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:26.981][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:26.983][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:26.984][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.985][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.986][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:26.988][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:26.989][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:26.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:26.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:26.997][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:26.998][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.003][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.004][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.006][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.007][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.008][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.010][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.012][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.014][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.015][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.019][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.020][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.023][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.024][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.027][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.028][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.030][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.031][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.034][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.035][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.041][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.042][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.046][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.048][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.049][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.052][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.053][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.057][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.059][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.063][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.064][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.068][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.070][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.074][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.075][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.078][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.083][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.085][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.087][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.088][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.091][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.092][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.093][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.094][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.096][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.097][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.098][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.099][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.102][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.103][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.105][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.106][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.107][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.108][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:27.110][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:27.111][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.115][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.120][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.122][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.124][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.129][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.130][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.134][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.135][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.137][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.138][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.139][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.140][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.142][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.144][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.146][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.147][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.149][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.151][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.156][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.160][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.164][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.165][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.167][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.169][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.175][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:27.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.197][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.202][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.223][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.228][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.268][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.297][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.332][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.337][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.342][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.389][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:27.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:27.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:27.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:27.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:27.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:27.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:27.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:27.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.413][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.418][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.433][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.438][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.458][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.465][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.474][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.521][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.530][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.539][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.548][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.567][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.576][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:27.579][private$selectFields]
biodb.TRACE[2024-06-08 16:05:27.581][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:27.583][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:27.584][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:27.586][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.588][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.591][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.592][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.594][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.595][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.597][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.602][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.604][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.608][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.612][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.613][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.623][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.625][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.626][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.627][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.629][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.631][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.633][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.634][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.639][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.641][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.643][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.644][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.646][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.648][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.649][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.652][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.654][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.656][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.657][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.659][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.662][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.674][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.675][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.679][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.680][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.683][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.685][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.686][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.687][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.690][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.691][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.693][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.694][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.696][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.697][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.699][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.700][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.702][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.703][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.704][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.705][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.707][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.709][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.710][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.711][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.713][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.714][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.715][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.716][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.719][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.720][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:27.721][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:27.722][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.724][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.726][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.727][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.729][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.731][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.737][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.738][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.741][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.743][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.746][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.748][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.750][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.751][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.754][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.759][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.761][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.764][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.765][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.766][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.768][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.769][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.770][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.772][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.774][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.775][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.778][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.783][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:27.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.799][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.804][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.809][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:27.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.829][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.834][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:27.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:27.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.844][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:27.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:27.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:27.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.879][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.884][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:27.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:27.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:27.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.919][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.924][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.929][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:27.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.934][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:27.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:27.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.954][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.959][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:27.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:27.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:27.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:27.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:27.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:27.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:27.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:27.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:27.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:27.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:27.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:27.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:27.997][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:27.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:27.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.002][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.016][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.021][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.031][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.050][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.055][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.084][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.089][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.094][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.104][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.109][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:28.110][private$selectFields]
biodb.TRACE[2024-06-08 16:05:28.111][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:28.112][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:28.114][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:28.115][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:28.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:28.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.118][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.120][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.129][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.133][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.140][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.145][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.148][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.149][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.150][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.153][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.155][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.159][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.160][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.163][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.165][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.167][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.168][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.172][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.173][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:28.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:28.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.177][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.178][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.179][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.180][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.182][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.186][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.187][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.188][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.190][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.195][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.198][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.200][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.202][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.224][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:28.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.236][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.243][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.317][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.348][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.350][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.357][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.359][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.364][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.366][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.368][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.370][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.372][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.374][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.380][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.383][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:28.385][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:28.388][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:28.390][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:28.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.397][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.404][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.406][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.414][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.416][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.419][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.421][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.423][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.426][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.428][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.435][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.438][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.442][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.445][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.447][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.451][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.456][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.459][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.461][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.463][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.465][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.468][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.470][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.472][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.474][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.476][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.478][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.481][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.483][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.485][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.490][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.492][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:28.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:28.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:28.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:28.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:28.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:28.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:28.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.521][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.531][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.540][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:28.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:28.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.588][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:28.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:28.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.594][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.617][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:28.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:28.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.659][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:28.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:28.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:28.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.689][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:28.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:28.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.716][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:28.718][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:28.719][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:28.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:28.738][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:28.742][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:28.744][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-06-08 16:05:28.746][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:28.747][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-06-08 16:05:28.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.843][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.873][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.902][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:28.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:28.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:28.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:28.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:28.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:28.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:28.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:28.979][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:28.983][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:28.985][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-06-08 16:05:28.986][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:28.988][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-06-08 16:05:28.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:28.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:28.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:28.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:29.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:29.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:29.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:29.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:29.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:29.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:29.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:29.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:29.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:29.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:29.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:29.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:29.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:29.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:29.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:29.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:29.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:29.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:29.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:29.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:29.079][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:29.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:29.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:29.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:29.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:29.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:29.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:29.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:29.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.105][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.110][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.130][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.155][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.160][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.165][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.204][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.209][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.219][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:29.220][private$selectFields]
biodb.TRACE[2024-06-08 16:05:29.221][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:29.222][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:29.224][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:29.225][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.226][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.229][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.230][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.231][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.236][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.238][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.240][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.241][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.244][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.246][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.249][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.251][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.253][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.254][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.256][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.259][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.260][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.263][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.264][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.265][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.268][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.269][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.270][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.273][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.274][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.277][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.282][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.284][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.285][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.286][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.287][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.288][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.290][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.291][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.292][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.293][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.296][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.297][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.298][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.300][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.301][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.302][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.303][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.305][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.306][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.307][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.308][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.311][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.312][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.313][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.314][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.316][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.317][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.318][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.319][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.322][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.323][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.327][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.328][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.329][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.332][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.333][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.334][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.338][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.339][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.341][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.343][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:29.344][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:29.345][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.346][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.349][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.350][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.351][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.354][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.355][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.356][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.359][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.360][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.361][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.363][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.365][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.366][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.370][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.371][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.374][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.376][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.379][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.381][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.383][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.384][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.385][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.388][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.389][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.394][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.395][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.400][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.404][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:29.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.420][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.430][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.450][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.455][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.491][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.496][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.501][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.547][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.552][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.557][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.562][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.572][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.577][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.599][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2024-06-08 16:05:29.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:29.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:29.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:29.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:29.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:29.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:29.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:29.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.624][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.644][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.649][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.687][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.691][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.707][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.713][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.738][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.749][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.761][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.766][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:29.767][private$selectFields]
biodb.TRACE[2024-06-08 16:05:29.768][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:29.770][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:29.771][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:29.772][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.773][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.776][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.777][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.778][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.781][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.782][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.786][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.787][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.788][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.789][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.791][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.792][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.793][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.796][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.797][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.798][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.802][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.803][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.806][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.807][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.808][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.811][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.812][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.813][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.817][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.818][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.821][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.822][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.823][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.825][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.827][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.828][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.829][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.832][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.833][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.835][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.837][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.842][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.843][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.845][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.847][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.848][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.850][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.851][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.854][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.855][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.862][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.863][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:29.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.865][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.866][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.868][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.870][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.872][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.876][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.877][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.878][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.882][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.886][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.887][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.888][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.892][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:29.893][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:29.895][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.898][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.899][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.904][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.906][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.907][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.908][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.909][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:29.911][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:29.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:29.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:29.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.919][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:29.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.924][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.925][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:29.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:29.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.933][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.934][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:29.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.938][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.939][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:29.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:29.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.943][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.944][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:29.945][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:29.947][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.948][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.949][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:29.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:29.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:29.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.966][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.976][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:29.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:29.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:29.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:29.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:29.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.041][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.076][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.081][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.086][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.096][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.101][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.116][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.128][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2024-06-08 16:05:30.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:30.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:30.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:30.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:30.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:30.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:30.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:30.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.157][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.219][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.230][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.248][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.254][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.261][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.299][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.314][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.320][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:30.321][private$selectFields]
biodb.TRACE[2024-06-08 16:05:30.322][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:30.323][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:30.324][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:30.326][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.327][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.331][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.336][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.338][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.340][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.341][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.346][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.351][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.356][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.358][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.361][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.363][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.365][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.366][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.368][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.370][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.371][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.376][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.377][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.380][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.384][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.385][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.386][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.387][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.389][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.390][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.391][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.392][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.395][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.396][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.397][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.400][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.401][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.402][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.405][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.406][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.407][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.410][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.411][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.413][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.415][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.419][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.420][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.421][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.423][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.424][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.425][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.426][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.430][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.432][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.433][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.435][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.436][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.438][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.439][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.440][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.442][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.443][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.444][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.447][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.448][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:30.449][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:30.451][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.457][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.460][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.461][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.463][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.465][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.470][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.472][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.481][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.482][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.483][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.485][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.486][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.487][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.490][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.491][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.493][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.494][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.496][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.497][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.498][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.500][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.501][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.502][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.504][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.506][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.507][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.509][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.510][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.512][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.514][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:30.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.530][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.535][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.540][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.565][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.596][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.656][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.661][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.666][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.671][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.700][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.713][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:30.716][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:30.717][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:30.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:30.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:30.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:30.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:30.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:30.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:30.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:30.743][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:30.748][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:30.749][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-06-08 16:05:30.751][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:30.752][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-06-08 16:05:30.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:30.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:30.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:30.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:30.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:30.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:30.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:30.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:30.784][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:30.788][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:30.790][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-06-08 16:05:30.791][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:30.793][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-06-08 16:05:30.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:30.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:30.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:30.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:30.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:30.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:30.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:30.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:30.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:30.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:30.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:30.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:30.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:30.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:30.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:30.853][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:30.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:30.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:30.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:30.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:30.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:30.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:30.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:30.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:30.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:30.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.879][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:30.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:30.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:30.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.899][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:30.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:30.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:30.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:30.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.928][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:30.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.933][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.938][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:30.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:30.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:30.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.963][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.968][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:30.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.972][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:30.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:30.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:30.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:30.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:30.994][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:30.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:30.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:30.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.000][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.005][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:31.006][private$selectFields]
biodb.TRACE[2024-06-08 16:05:31.007][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:31.008][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:31.009][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:31.011][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.012][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.014][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.016][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.017][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.018][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.019][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.024][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.026][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.027][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.028][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.031][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.034][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.036][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.037][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.040][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.042][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.044][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.046][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.047][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.049][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.050][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.052][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.054][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.055][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.057][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.058][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.059][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.060][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.062][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.064][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.066][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.067][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.069][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.071][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.072][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.076][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.077][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.079][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.081][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.082][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.091][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.095][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.097][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.101][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.102][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.103][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.104][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.129][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.132][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.133][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.134][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.137][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.142][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.143][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.145][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.147][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.148][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.149][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.152][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.153][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.154][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.158][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.159][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.163][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:31.164][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:31.165][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.169][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.170][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.181][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.186][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.187][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.193][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.194][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.197][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.198][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.199][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.204][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.205][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.206][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.207][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.209][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.210][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.211][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.212][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.214][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.215][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.216][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.217][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.221][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.222][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.226][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:31.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.254][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.279][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.284][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.366][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.391][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.396][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.409][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [192288, 0, 192288, C27H54O2, InChI=1S/C27H54O2/c1-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-21-22-23-24-25-26-27(28)29-2/h3-26H2,1-2H3, ...].
biodb.DEBUG[2024-06-08 16:05:31.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:31.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:31.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:31.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:31.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:31.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:31.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:31.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.435][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.440][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.466][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.492][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.517][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.544][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.550][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.555][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.560][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.578][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.584][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.590][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.595][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:31.596][private$selectFields]
biodb.TRACE[2024-06-08 16:05:31.597][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:31.598][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:31.600][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:31.601][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.603][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.605][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.607][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.608][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.611][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.614][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.619][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.620][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.622][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.624][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.625][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.632][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.634][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.636][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.638][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.639][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.641][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.643][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.644][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.645][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.648][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.649][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.653][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.654][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.655][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.659][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.660][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.664][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.665][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.667][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.669][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.670][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.673][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.675][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.678][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.682][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.687][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.688][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.689][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.692][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.693][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.694][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.697][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.698][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.699][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.700][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.702][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.703][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.705][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.707][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.708][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.710][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.712][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.713][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.715][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.717][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.718][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.720][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.722][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.723][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.725][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.726][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.727][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.728][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.730][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.731][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.732][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.733][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.735][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:31.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.737][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.739][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:31.740][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:31.741][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.742][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.744][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.745][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.746][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.748][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.749][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.750][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.756][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.757][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.758][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.760][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.761][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.763][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.766][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.768][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.771][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.772][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.773][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.775][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.777][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.778][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.779][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.780][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.782][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.783][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.784][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.786][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.787][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.788][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.791][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.792][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.796][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.798][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.799][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.803][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:31.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:31.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:31.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.826][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.831][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.836][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:31.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:31.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:31.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:31.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:31.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:31.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:31.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.896][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:31.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.901][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.906][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.911][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:31.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:31.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:31.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.947][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.952][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.957][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:31.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.968][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:31.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:31.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.978][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.983][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:31.988][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:31.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:31.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:31.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.001][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-06-08 16:05:32.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.026][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.031][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.047][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.057][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.062][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.091][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.096][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.101][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.106][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.130][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.138][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.165][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.170][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.175][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.180][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:32.181][private$selectFields]
biodb.TRACE[2024-06-08 16:05:32.182][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:32.183][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:32.184][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:32.186][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.187][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.189][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.191][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.194][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.199][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.201][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.202][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.206][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.207][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.209][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.210][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.212][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.215][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.217][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.219][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.220][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.222][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.224][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.226][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.227][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.229][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.231][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.232][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.234][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.236][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.237][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.239][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.241][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.242][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.245][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.246][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.247][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.251][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.252][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.256][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.259][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.261][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.267][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.269][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.271][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.273][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.275][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.276][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.277][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.280][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.281][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.283][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.285][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.286][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.290][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.292][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.293][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.295][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.301][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.302][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.303][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.307][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.308][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.311][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.312][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.314][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.316][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.317][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.319][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.321][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.322][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:32.324][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:32.325][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.326][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.330][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.332][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.334][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.337][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.339][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.340][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.344][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.345][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.346][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.348][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.349][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.350][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.351][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.353][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.354][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.355][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.356][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.359][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.361][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.363][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.365][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.366][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.370][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.374][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.376][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.379][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.400][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.405][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.426][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.431][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.461][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.510][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.515][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.525][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.540][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.581][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [209892, 0, 209892, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-30(8)25-13-14-26-27(4,5)17-10-18-28(26,6)24(25)16-20-29(23,30)7/h11,13,22-24,26H,9-10,12,14-20H2,1-8H3/t22-,23+,24+,26+,28-,29+,30-/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:32.582][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:32.584][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:32.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:32.610][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.62*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:32.614][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:32.616][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b3cd8ddf08f509014f10dc9bf7c1649d".
biodb.TRACE[2024-06-08 16:05:32.617][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:32.621][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b3cd8ddf08f509014f10dc9bf7c1649d.content".
biodb.DEBUG[2024-06-08 16:05:32.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:32.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:32.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.63*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:32.690][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:32.691][cch$loadFileContent] Trying to load 1 files from cache: [1]: "831507e33c6cf42061851262412f5feb".
biodb.TRACE[2024-06-08 16:05:32.693][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:32.694][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/831507e33c6cf42061851262412f5feb.content".
biodb.DEBUG[2024-06-08 16:05:32.697][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:32.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:32.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:32.784][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:32.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:32.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:32.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:32.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:32.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:32.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:32.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:32.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.809][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.814][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.833][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.843][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.848][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.858][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.862][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.887][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.891][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.896][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.901][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.906][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.911][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.916][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.921][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.926][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:32.927][private$selectFields]
biodb.TRACE[2024-06-08 16:05:32.928][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:32.930][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:32.931][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:32.933][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.934][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:32.935][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.936][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.938][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:32.939][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:32.940][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.941][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.944][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:32.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.946][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.947][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:32.949][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:32.950][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.951][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.953][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:32.954][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:32.955][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.956][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.958][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:32.960][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.961][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.963][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.964][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:32.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.966][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.967][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.969][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:32.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.971][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.972][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.974][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:32.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.976][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.977][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.979][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:32.980][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.981][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.982][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:32.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:32.985][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.986][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:32.989][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:32.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.991][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.992][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.993][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:32.995][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:32.996][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:32.997][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:32.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.002][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.003][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.012][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.013][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.017][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.018][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.023][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.027][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.028][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.032][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.039][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.040][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.041][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.042][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.044][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.046][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.047][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.049][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.052][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.053][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.057][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.058][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.062][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:33.063][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:33.064][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.065][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.068][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.069][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.070][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.073][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.075][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.078][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.079][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.083][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.086][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.089][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.092][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.093][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.097][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.100][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.101][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.103][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.105][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.106][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.107][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.108][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.110][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.114][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.115][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.117][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.119][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.121][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:33.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.142][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.147][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.152][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.173][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.178][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.218][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.223][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.228][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.263][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.268][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.273][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.283][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.293][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.298][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.303][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.315][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:33.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:33.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:33.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:33.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:33.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:33.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:33.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:33.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.373][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.399][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.423][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.430][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.455][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.460][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.465][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.475][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.480][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.485][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.490][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.495][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:33.496][private$selectFields]
biodb.TRACE[2024-06-08 16:05:33.498][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:33.499][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:33.500][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:33.501][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.503][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.505][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.506][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.508][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.510][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.511][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.513][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.516][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.518][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.520][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.521][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.523][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.525][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.526][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.528][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.529][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.530][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.531][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.532][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.535][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.536][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.537][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.538][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.539][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.541][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.542][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.543][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.544][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.545][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.547][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.548][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.549][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.550][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.551][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.553][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.554][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.555][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.557][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.558][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.560][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.561][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.563][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.564][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.566][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.568][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.573][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.574][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.579][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.581][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.582][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.584][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.585][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.586][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.587][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.588][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.593][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.597][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.598][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.601][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.603][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.605][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.606][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.607][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.610][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.611][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.612][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.614][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.616][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.617][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.619][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.620][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.621][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.624][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.625][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.626][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:33.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.629][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.630][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:33.631][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:33.632][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.637][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.639][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.641][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.644][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.646][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.647][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.648][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.650][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.651][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.652][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.653][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.656][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.657][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.658][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.661][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.662][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.663][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.667][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.668][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.672][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.673][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.677][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.678][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.682][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.683][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.686][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.687][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.688][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.691][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.692][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:33.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.709][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.714][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.719][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.745][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.750][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.755][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.797][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.807][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.812][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.817][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.822][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:33.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.854][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.859][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.867][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:33.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:33.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:33.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.887][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.892][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.897][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:33.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:33.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.909][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [16587, 0, 16587, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)9-8-22(31)26(5,33)21-7-11-27(34)16-12-18(28)17-13-19(29)20(30)14-24(17,3)15(16)6-10-25(21,27)4/h12,15,17,19-22,29-34H,6-11,13-14H2,1-5H3/t15-,17-,19+,20-,21-,22+,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:33.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:33.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:33.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:33.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:33.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:33.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:33.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:33.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:33.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.933][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.938][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:33.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:33.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:33.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.953][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:33.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:33.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:33.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:33.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:33.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.984][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:33.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.018][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.023][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.043][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.048][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.053][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.058][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:34.060][private$selectFields]
biodb.TRACE[2024-06-08 16:05:34.061][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:34.062][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:34.063][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:34.064][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.066][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.068][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.070][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.071][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.079][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.080][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.081][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.085][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.086][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.087][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.090][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.091][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.093][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.096][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.098][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.100][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.101][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.103][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.104][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.106][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.108][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.109][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.110][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.114][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.115][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.116][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.117][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.119][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.120][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.123][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.125][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.127][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.128][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.129][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.132][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.133][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.134][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.136][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.141][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.142][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.144][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.146][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.147][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.148][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.152][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.153][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.155][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.156][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.158][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.160][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.161][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.162][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.165][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.166][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.167][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.169][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.170][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.172][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.175][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.177][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.178][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.182][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.184][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.185][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.186][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.189][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.190][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:34.191][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:34.192][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.194][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.195][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.197][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.199][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.200][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.201][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.204][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.206][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.207][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.208][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.216][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.218][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.221][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.222][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.223][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.226][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.227][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.228][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.230][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.231][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.232][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.233][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.235][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.236][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.237][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.240][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.241][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.242][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.243][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.246][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.247][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:34.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.295][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.315][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.326][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.341][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.346][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.402][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.407][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.427][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.442][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.455][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [19804, 0, 19804, C27H44O7, InChI=1S/C27H44O7/c1-23(2,32)8-5-9-26(33,15-28)22-7-11-27(34)17-12-19(29)18-13-20(30)21(31)14-24(18,3)16(17)6-10-25(22,27)4/h12,16,18,20-22,28,30-34H,5-11,13-15H2,1-4H3/t16-,18-,20+,21-,22-,24+,25+,26+,27+/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:34.456][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:34.457][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:34.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:34.477][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:34.481][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:34.483][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26d0872875c47c33e8205aa7124e0486".
biodb.TRACE[2024-06-08 16:05:34.485][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:34.486][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26d0872875c47c33e8205aa7124e0486.content".
biodb.DEBUG[2024-06-08 16:05:34.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.717][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:34.721][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:34.722][cch$loadFileContent] Trying to load 1 files from cache: [1]: "357534c211a0779cb44e196fcebae6c0".
biodb.TRACE[2024-06-08 16:05:34.724][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:34.726][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/357534c211a0779cb44e196fcebae6c0.content".
biodb.DEBUG[2024-06-08 16:05:34.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:34.813][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:34.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:34.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:34.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:34.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:34.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:34.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:34.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.858][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.882][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.897][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.902][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:34.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:34.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.927][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.932][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:34.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:34.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:34.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:34.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:34.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.956][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.961][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:34.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.965][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:34.967][private$selectFields]
biodb.TRACE[2024-06-08 16:05:34.968][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:34.969][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:34.970][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:34.971][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:34.973][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:34.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.975][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.976][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:34.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:34.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.980][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:34.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.984][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.986][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:34.987][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:34.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.990][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:34.992][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:34.993][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.994][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:34.995][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.996][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:34.998][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:34.999][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.000][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.001][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.004][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.005][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.006][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.007][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.008][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.012][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.013][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.014][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.016][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.017][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.018][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.019][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.020][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.023][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.024][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.025][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.026][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.027][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.029][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.030][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.031][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.032][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.033][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.035][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.038][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.040][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.042][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.044][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.047][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.048][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.049][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.050][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.051][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.053][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.055][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.056][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.059][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.062][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.064][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.065][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.066][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.067][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.068][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.071][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.073][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.076][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.077][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.079][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.081][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.082][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.083][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.085][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.087][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.088][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.090][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.091][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.093][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.095][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.096][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:35.097][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:35.118][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.120][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.123][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.127][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.128][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.129][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.132][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.133][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.134][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.135][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.136][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.137][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.141][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.144][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.146][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.147][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.148][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.151][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.152][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.153][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.155][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.157][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.158][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.159][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.160][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.162][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.163][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.167][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.168][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.170][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.172][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.173][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.175][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.177][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:35.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.194][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.262][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.272][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.277][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.282][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.327][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.374][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [7799, 0, 7799, C16H31N2O8P, InChI=1S/C16H28N2O4.H3O4P/c1-5-12(6-2)22-14-9-11(16(20)21-7-3)8-13(17)15(14)18-10(4)19;1-5(2,3)4/h9,12-15H,5-8,17H2,1-4H3,(H,18,19);(H3,1,2,3,4)/t13-,14+,15+;/m0./s1, ...].
biodb.DEBUG[2024-06-08 16:05:35.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:35.377][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:35.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:35.384][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:35.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:35.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:35.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.399][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.423][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.452][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.482][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.497][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.507][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.516][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:35.517][private$selectFields]
biodb.TRACE[2024-06-08 16:05:35.519][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:35.520][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:35.521][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:35.522][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.524][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.526][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.527][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.528][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.531][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.535][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.537][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.538][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.540][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.541][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.543][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.546][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.548][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.550][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.551][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.552][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.556][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.558][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.559][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.561][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.562][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.565][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.567][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.569][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.570][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.572][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.574][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.579][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.580][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.581][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.582][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.583][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.585][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.586][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.587][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.588][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.589][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.591][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.593][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.594][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.598][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.599][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.600][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.602][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.603][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.604][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.605][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.608][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.609][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.610][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.612][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.617][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.618][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.620][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.621][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.622][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.623][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.626][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.627][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.628][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.629][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.632][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.633][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.634][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.641][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.642][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.644][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:35.645][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.646][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.647][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:35.648][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:35.650][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.651][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.653][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.654][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.656][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.657][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.659][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.663][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.664][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.665][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.668][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.669][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.671][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.672][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.673][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.674][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.675][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.678][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.679][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.680][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.682][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.683][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.684][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.685][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.688][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.689][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.690][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.693][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.694][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.695][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.702][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.704][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.705][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.707][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.709][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:35.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.725][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.735][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.755][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.760][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.765][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.770][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.775][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.780][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.790][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.795][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.835][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.839][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.854][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:35.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:35.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.860][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.865][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.870][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:35.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:35.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.882][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [71954, 0, 71954, C18H21F3N6O2, InChI=1S/C18H21F3N6O2/c19-18(20,21)13-9-15(22)23-11-12(13)14-10-16(26-1-5-28-6-2-26)25-17(24-14)27-3-7-29-8-4-27/h9-11H,1-8H2,(H2,22,23), ...].
biodb.DEBUG[2024-06-08 16:05:35.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:35.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:35.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:35.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:35.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:35.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:35.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:35.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:35.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:35.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.907][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:35.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:35.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:35.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:35.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:35.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:35.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:35.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:35.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.958][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:35.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:35.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:35.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.988][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:35.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:35.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:35.999][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.004][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.010][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.020][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.024][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.029][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:36.030][private$selectFields]
biodb.TRACE[2024-06-08 16:05:36.032][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:36.033][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:36.034][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:36.035][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.036][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.038][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.039][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.040][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.041][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.043][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.045][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.046][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.047][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.048][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.049][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.051][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.052][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.053][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.054][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.055][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.057][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.058][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.059][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.060][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.061][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.062][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.065][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.068][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.070][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.073][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.075][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.078][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.079][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.081][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.083][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.084][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.085][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.086][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.087][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.089][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.092][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.093][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.094][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.097][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.098][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.100][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.102][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.103][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.104][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.105][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.111][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.114][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.115][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.116][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.117][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.119][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.120][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.121][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.122][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.124][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.126][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.127][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.129][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.130][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.134][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.135][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.139][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.140][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.141][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.144][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.146][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.148][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.149][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.151][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.153][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.154][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.155][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.157][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.158][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.160][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:36.161][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.162][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.163][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:36.164][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:36.165][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.167][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.169][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.170][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.171][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.174][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.178][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.179][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.181][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.182][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.183][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.184][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.185][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.187][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.188][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.189][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.192][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.193][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.195][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.196][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.197][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.200][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.202][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.203][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.204][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.207][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.208][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.209][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.213][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.214][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.216][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.217][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:36.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.238][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.292][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.337][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.365][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.399][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.409][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.421][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [197612, 0, 197612, C18H18O9S, InChI=1S/C18H18O9S/c1-7-3-9(19)13-11(4-7)27-16-8(14(13)21)5-12(28-16)18(25,17(24)26-2)6-10(20)15(22)23/h3-4,10,12,19-20,25H,5-6H2,1-2H3,(H,22,23)/t10-,12+,18?/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:36.423][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:36.424][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:05:36.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:36.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:36.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:36.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:36.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:36.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:36.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:36.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:36.512][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:36.516][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:36.518][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-08 16:05:36.519][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:36.521][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-08 16:05:36.525][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:36.529][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:36.531][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-08 16:05:36.532][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:36.534][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-08 16:05:36.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:36.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:36.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:36.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:36.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:36.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:36.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:36.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:36.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:36.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:36.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:36.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:36.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:36.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:36.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:36.583][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:36.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:36.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:36.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:36.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:36.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:36.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:36.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:36.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:36.626][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:36.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:36.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:36.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:36.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:36.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:36.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:36.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:36.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.651][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.671][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.676][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.681][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.701][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.773][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.779][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:36.780][private$selectFields]
biodb.TRACE[2024-06-08 16:05:36.781][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:36.782][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:36.784][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:36.785][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.786][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.787][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.789][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.790][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.792][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.793][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.795][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.800][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.802][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.810][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.812][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.818][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.819][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.822][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.823][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.825][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.826][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.828][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.829][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.830][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.832][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.834][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.835][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.837][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.838][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.839][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.840][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.841][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.843][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.845][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.846][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.848][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.849][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.852][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.854][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.857][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.859][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.864][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.866][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.867][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.868][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.873][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.874][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.876][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.877][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.881][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.882][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.883][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.884][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.886][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.887][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.888][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.889][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.890][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.894][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.895][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.897][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.898][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.900][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.901][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.903][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.905][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.907][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.908][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.910][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.912][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:36.913][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:36.914][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.915][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.919][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.920][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.922][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:36.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.927][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.928][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:36.930][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:36.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.932][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:36.935][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:36.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.940][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:36.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.942][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.943][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.945][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:36.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.947][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.948][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.949][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:36.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.952][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.953][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.955][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:36.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.958][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.960][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:36.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.962][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.963][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:36.965][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:36.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.967][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.968][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:36.969][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:36.970][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.972][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.973][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:36.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:36.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:36.995][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:36.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:36.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:36.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.000][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.005][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.030][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.035][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.050][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.060][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.065][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.070][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.075][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.080][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.115][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.119][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.124][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.155][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.168][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:37.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:37.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:37.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:37.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:37.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:37.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:37.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.212][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.217][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.237][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.257][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.262][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.267][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.302][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.307][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.317][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.327][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:37.328][private$selectFields]
biodb.TRACE[2024-06-08 16:05:37.329][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:37.330][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:37.331][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:37.333][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.334][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.336][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.338][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.339][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.341][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.344][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.345][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.346][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.347][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.348][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.351][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.358][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.361][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.364][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.365][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.366][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.367][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.368][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.369][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.372][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.373][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.374][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.375][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.377][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.378][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.379][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.380][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.381][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.384][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.385][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.386][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.389][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.390][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.391][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.393][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.395][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.396][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.400][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.401][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.402][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.404][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.406][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.407][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.409][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.411][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.414][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.415][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.423][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.424][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.427][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.428][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.429][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.430][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.432][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.433][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.435][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.436][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.438][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.439][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.440][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.441][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.443][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.444][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.445][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.446][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.447][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.449][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.450][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.451][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.452][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.454][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:37.455][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:37.456][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.457][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.460][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.461][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.462][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.465][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.470][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.471][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.476][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.480][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.481][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.482][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.485][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.487][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.489][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.491][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.492][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.493][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.495][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.496][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.500][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.501][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.503][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.504][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.506][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.507][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.508][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.509][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.510][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.512][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.514][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.515][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:37.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.531][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.541][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.566][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.605][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.610][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.615][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.650][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.655][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.660][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.675][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.681][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.686][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.691][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.704][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-06-08 16:05:37.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:37.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:37.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:37.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:37.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:37.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:37.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:37.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.747][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.751][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.766][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.771][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.781][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.796][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.831][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.847][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.857][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.862][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.867][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:37.868][private$selectFields]
biodb.TRACE[2024-06-08 16:05:37.870][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:37.871][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:37.872][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:37.873][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.875][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.877][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.878][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.880][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.888][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.889][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.890][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.893][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.894][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.895][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.898][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.899][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.900][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.904][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.905][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.908][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.909][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.910][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.914][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.916][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.919][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.921][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.925][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.926][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.927][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.929][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.930][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.931][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.934][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.935][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.936][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:37.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.940][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:37.942][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:37.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.944][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:37.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.949][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.951][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:37.952][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:37.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.956][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:37.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:37.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.960][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.962][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:37.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.964][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.965][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.966][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:37.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.970][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.971][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:37.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.974][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.975][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.976][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:37.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.980][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.981][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:37.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.983][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.985][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:37.986][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:37.987][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.988][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.990][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:37.991][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:37.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:37.993][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:37.995][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:37.996][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:37.997][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:37.998][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.000][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.001][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.002][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.003][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.006][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.009][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.011][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.012][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.013][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.014][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.016][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.017][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.018][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.019][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.020][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.023][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.024][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.025][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.027][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.028][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.029][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.030][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.031][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.034][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.035][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.036][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.039][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.040][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.041][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.044][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.045][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.046][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.050][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.051][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:38.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.067][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.077][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.101][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.106][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.122][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.172][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.203][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.213][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.232][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.244][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:38.245][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:38.247][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:38.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:38.252][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:38.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:38.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:38.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:38.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:38.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:38.266][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:38.270][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:38.273][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-06-08 16:05:38.275][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:38.277][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-06-08 16:05:38.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:38.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:38.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:38.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:38.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:38.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:38.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:38.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:38.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:38.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:38.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:38.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:38.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:38.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:38.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:38.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:38.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:38.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:38.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:38.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:38.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:38.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:38.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:38.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:38.373][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:38.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:38.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:38.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:38.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:38.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:38.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:38.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:38.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.398][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.403][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.428][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.433][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.438][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.443][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.448][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.452][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.477][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.482][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.496][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.501][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.506][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:38.508][private$selectFields]
biodb.TRACE[2024-06-08 16:05:38.509][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:38.510][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:38.511][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:38.513][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.514][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.515][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.516][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.517][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.519][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.520][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.521][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.524][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.525][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.526][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.527][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.529][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.530][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.531][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.535][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.536][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.537][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.538][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.539][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.541][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.542][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.543][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.545][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.547][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.548][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.550][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.554][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.555][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.556][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.558][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.560][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.561][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.566][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.568][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.570][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.571][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.572][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.574][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.576][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.577][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.578][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.583][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.584][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.586][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.589][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.591][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.592][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.594][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.596][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.599][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.600][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.602][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.604][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.605][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.607][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.609][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.610][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.612][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.613][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.614][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.615][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.617][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.618][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.619][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.620][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.623][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.624][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.625][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.627][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.629][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.630][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:38.632][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:38.633][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.634][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.635][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.636][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.638][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.639][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.640][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.665][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.672][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.673][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.677][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.678][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.682][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.683][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.686][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.687][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.688][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.690][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.692][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.693][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.694][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.695][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.697][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.698][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.700][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.702][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.703][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.704][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.706][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.707][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.708][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.709][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.711][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.712][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.713][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.715][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.717][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.743][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.748][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.757][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.778][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.783][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.788][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.808][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.823][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.828][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:38.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:38.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:38.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.879][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:38.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.890][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.895][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:38.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.905][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.910][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:38.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:38.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.924][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:38.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:38.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:38.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:38.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:38.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:38.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:38.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:38.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.954][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:38.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:38.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.974][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:38.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:38.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.980][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:38.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:38.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:38.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:38.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:38.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.000][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.032][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.037][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.042][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.057][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.062][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:39.063][private$selectFields]
biodb.TRACE[2024-06-08 16:05:39.065][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:39.066][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:39.067][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:39.068][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.070][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.072][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.073][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.077][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.081][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.082][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.083][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.085][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.086][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.087][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.089][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.090][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.092][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.093][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.094][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.096][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.098][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.099][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.101][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.103][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.105][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.106][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.133][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.134][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.136][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.139][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.140][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.144][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.146][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.148][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.150][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.151][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.153][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.154][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.155][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.158][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.159][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.160][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.162][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.163][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.164][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.167][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.169][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.170][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.173][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.179][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.180][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.182][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.184][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.190][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.191][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.192][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.195][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.196][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.200][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.201][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.202][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.206][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.208][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.209][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.211][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.213][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.214][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.219][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.220][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.221][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.223][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.225][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.227][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:39.228][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:39.229][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.233][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.234][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.235][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.237][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.238][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.239][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.241][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.244][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.245][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.249][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.250][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.253][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.254][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.255][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.259][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.260][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.262][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.263][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.265][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.267][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.268][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.269][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.273][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.274][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.277][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.278][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.279][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.283][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.299][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.304][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.328][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.333][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.338][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.343][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.358][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.404][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.408][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.428][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.439][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.444][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.456][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:39.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:39.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:39.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:39.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:39.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:39.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:39.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:39.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.481][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.486][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.501][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.511][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.520][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.535][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.576][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.581][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.597][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:39.598][private$selectFields]
biodb.TRACE[2024-06-08 16:05:39.599][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:39.600][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:39.602][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:39.603][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.604][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.607][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.629][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.631][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.633][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.638][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.639][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.641][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.643][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.644][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.645][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.648][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.649][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.653][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.656][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.657][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.658][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.660][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.661][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.662][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.663][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.665][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.666][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.667][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.668][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.669][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.673][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.675][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.678][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.680][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.683][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.684][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.685][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.687][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.688][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.689][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.690][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.693][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.694][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.698][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.700][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.701][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.702][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.703][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.705][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.712][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.713][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.714][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.717][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.718][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.719][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:39.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.721][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.723][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.724][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.726][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.728][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.729][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.730][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.731][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.732][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.734][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.735][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.736][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.737][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.739][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.740][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.741][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.742][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.744][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.745][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.746][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.747][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:39.748][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:39.750][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.751][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.754][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.756][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.764][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.766][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.768][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.769][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.773][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.774][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.775][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.778][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.779][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.780][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.784][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.785][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.788][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.789][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.790][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.791][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.792][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.794][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.795][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.796][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.797][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.798][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.800][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.801][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.802][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.803][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:39.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:39.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:39.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.820][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.825][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:39.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:39.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:39.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.850][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:39.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:39.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:39.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:39.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:39.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:39.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.925][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.930][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.935][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:39.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.940][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.945][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:39.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:39.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.955][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:39.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:39.977][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:39.978][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:39.980][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:39.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:39.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:39.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:39.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:39.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:39.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:39.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:39.999][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:40.004][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:40.006][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-06-08 16:05:40.008][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:40.010][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-06-08 16:05:40.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:40.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:40.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:40.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:40.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:40.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:40.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:40.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:40.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:40.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:40.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:40.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:40.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:40.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:40.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:40.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:40.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:40.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:40.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:40.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:40.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:40.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:40.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:40.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:40.102][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:40.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:40.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:40.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:40.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:40.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:40.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:40.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:40.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.127][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.132][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.152][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.177][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.182][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.207][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.212][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.227][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.232][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.237][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:40.238][private$selectFields]
biodb.TRACE[2024-06-08 16:05:40.239][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:40.241][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:40.242][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:40.243][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.246][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.247][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.248][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.251][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.252][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.253][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.254][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.257][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.258][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.259][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.262][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.263][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.264][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.265][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.267][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.268][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.269][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.270][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.274][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.276][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.278][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.279][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.282][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.284][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.286][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.287][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.289][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.291][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.292][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.293][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.296][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.297][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.298][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.300][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.301][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.302][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.303][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.306][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.307][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.308][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.311][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.313][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.317][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.320][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.322][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.323][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.325][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.327][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.328][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.331][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.333][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.336][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.338][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.340][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.346][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.348][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.351][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.353][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.356][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.357][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.361][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:40.362][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:40.364][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.367][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.368][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.370][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.372][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.373][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.377][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.378][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.382][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.383][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.384][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.387][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.388][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.389][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.390][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.394][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.395][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.396][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.398][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.399][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.400][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.401][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.403][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.404][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.405][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.406][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.407][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.409][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.411][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.412][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.414][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.419][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.421][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.422][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:40.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.444][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.454][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.532][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.537][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.542][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.576][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.601][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.606][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.627][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.632][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.637][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.651][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2024-06-08 16:05:40.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:40.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:40.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:40.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:40.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:40.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:40.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:40.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.676][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.681][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.700][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.705][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.726][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.731][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.737][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.763][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.768][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.778][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.783][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.788][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.793][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:40.794][private$selectFields]
biodb.TRACE[2024-06-08 16:05:40.795][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:40.797][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:40.798][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:40.799][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.800][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.802][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.803][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.804][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.805][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.808][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.810][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.811][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.813][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.814][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.816][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.817][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.819][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.820][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.822][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.825][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.827][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.828][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.830][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.832][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.833][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.835][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.837][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.838][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.839][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.842][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.843][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.844][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.847][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.848][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.849][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.852][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.853][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.854][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.858][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.859][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.863][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.864][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.866][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.867][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.871][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.872][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.876][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.877][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.879][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.880][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.886][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.887][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.889][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.891][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.892][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.893][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:40.895][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.896][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.897][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.898][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.901][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.902][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.903][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.904][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.906][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.907][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.908][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.909][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.910][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.912][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.913][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.915][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.916][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.918][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.919][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.920][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.922][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:40.923][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:40.924][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.926][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.928][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.929][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.933][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:40.936][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.937][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.939][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:40.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:40.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.942][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.943][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:40.945][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:40.946][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.947][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.948][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:40.951][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.952][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.953][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.955][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:40.956][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.957][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.958][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:40.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.962][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.963][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.964][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:40.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.967][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.968][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:40.969][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:40.971][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.972][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:40.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:40.975][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.977][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.978][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:40.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:40.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:40.995][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:40.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:40.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:40.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.128][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.193][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.222][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.227][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.232][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.238][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.243][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.255][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2024-06-08 16:05:41.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:41.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:41.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:41.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:41.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:41.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:41.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:41.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.294][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.299][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.304][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.334][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.358][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.363][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.373][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.378][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.388][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:41.393][private$selectFields]
biodb.TRACE[2024-06-08 16:05:41.395][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:41.396][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:41.397][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:41.399][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.400][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.402][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.403][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.405][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.407][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.408][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.409][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.412][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.413][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.415][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.416][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.418][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.419][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.421][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.422][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.424][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.426][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.427][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.428][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.430][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.431][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.432][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.433][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.435][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.437][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.438][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.439][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.440][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.441][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.443][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.444][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.445][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.446][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.449][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.450][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.451][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.454][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.455][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.456][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.458][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.459][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.460][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.461][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.463][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.465][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.469][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.470][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.471][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.473][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.475][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.479][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.480][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.482][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.483][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.484][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.485][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.488][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.490][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.491][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.493][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.494][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.495][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.496][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.499][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.500][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.501][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.503][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.504][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.505][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.506][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.509][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.510][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.511][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.513][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.516][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:41.517][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:41.519][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.520][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.521][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.522][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.524][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.525][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.526][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.527][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.530][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.531][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.532][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.533][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.534][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.536][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.537][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.538][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.539][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.542][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.543][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.544][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.545][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.546][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.548][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.549][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.550][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.551][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.556][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.557][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.558][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.559][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.561][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.562][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.565][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.571][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.572][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:41.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.588][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.593][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.598][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.619][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.624][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.629][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.639][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.668][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:41.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.723][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.732][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:41.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:41.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.755][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.763][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:41.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:41.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.782][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:41.783][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:41.784][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:41.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:41.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:41.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:41.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:41.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:41.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:41.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:41.810][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:41.814][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:41.815][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-06-08 16:05:41.817][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:41.819][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-06-08 16:05:41.822][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:41.827][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:41.828][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-06-08 16:05:41.830][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:41.837][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-06-08 16:05:41.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:41.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:41.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:41.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:41.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:41.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:41.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:41.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:41.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:41.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:41.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:41.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:41.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:41.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:41.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:41.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:41.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:41.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:41.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:41.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:41.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:41.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:41.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:41.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:41.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:41.923][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:41.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:41.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:41.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:41.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:41.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:41.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:41.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:41.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:41.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:41.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.953][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:41.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:41.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:41.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:41.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:41.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:41.997][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:41.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.002][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.027][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.032][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.046][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.051][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.056][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.061][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.065][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.066][private$selectFields]
biodb.TRACE[2024-06-08 16:05:42.068][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:42.069][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:42.070][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.071][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.072][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.074][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.075][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.076][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.077][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.080][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.082][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.086][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.087][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.090][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.092][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.095][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.096][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.100][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.101][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.103][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.105][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.106][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.108][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.109][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.111][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.114][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.115][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.118][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.119][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.121][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.122][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.124][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.125][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.126][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.127][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.128][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.130][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.131][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.132][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.133][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.135][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.136][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.137][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.138][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.140][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.141][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.142][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.147][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.148][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.149][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.152][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.153][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.154][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.155][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.156][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.157][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.160][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.161][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.162][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.164][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.165][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.166][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.167][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.168][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.169][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.171][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.172][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.173][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.174][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.176][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.177][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.178][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.180][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.182][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.183][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.187][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.188][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.190][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.192][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.193][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.196][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.197][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.198][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.199][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.201][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.202][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.203][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.205][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.206][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.207][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.208][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.210][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.212][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.213][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.215][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.216][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.239][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.241][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.242][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.244][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.245][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.247][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.249][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.250][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.252][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.254][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.255][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.261][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.262][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.264][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.265][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.266][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.267][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.268][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.269][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.271][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.272][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.273][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.274][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.277][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.278][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.282][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.284][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.300][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.305][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.344][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.379][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.384][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.424][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.429][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.434][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.460][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.465][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.479][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4648, 0, 4648, C30H50, InChI=1S/C30H50/c1-20(2)21-12-17-27(5)22(21)13-18-29(7)24(27)10-11-25-28(6)16-9-15-26(3,4)23(28)14-19-30(25,29)8/h21-25H,1,9-19H2,2-8H3/t21-,22+,23+,24-,25-,27+,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:42.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:42.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:42.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:42.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:42.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:42.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:42.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.504][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.525][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.530][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.554][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.559][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.584][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.609][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.614][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.619][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.624][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.625][private$selectFields]
biodb.TRACE[2024-06-08 16:05:42.626][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:42.627][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:42.628][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.630][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.633][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.634][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.658][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.659][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.662][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.663][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.664][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.665][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.667][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.668][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.669][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.670][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.671][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.672][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.674][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.675][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.678][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.680][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.681][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.682][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.683][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.685][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.692][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.694][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.695][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.697][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.698][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.702][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.703][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.704][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.707][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.708][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.709][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.711][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.712][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.714][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.715][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.717][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.718][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.719][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.720][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.722][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.723][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.724][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.725][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.727][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.728][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.734][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.735][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.736][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.738][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.739][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.740][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.746][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.747][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.749][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.751][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.753][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.754][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.759][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.760][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.764][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.765][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.768][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.769][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.770][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.773][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.774][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.775][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.779][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.780][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.783][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.785][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:42.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.787][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.788][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.789][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:42.791][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.792][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.795][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.805][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.809][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.810][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.811][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.814][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.816][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.817][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.820][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.821][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.824][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.825][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.826][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.829][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.830][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.831][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.835][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.840][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:42.841][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:42.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.845][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:42.847][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:42.848][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.849][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.851][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:42.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:42.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:42.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.868][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.873][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.878][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:42.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:42.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.900][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.905][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.911][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:42.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:42.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.917][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.922][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:42.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:42.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.933][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:42.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.948][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.954][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.959][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:42.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:42.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:42.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:42.995][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:42.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:42.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.005][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.010][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.036][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.049][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [15440, 0, 15440, C30H50, InChI=1S/C30H50/c1-25(2)15-11-19-29(7)23-13-21-27(5)17-9-10-18-28(6)22-14-24-30(8)20-12-16-26(3)4/h15-18,23-24H,9-14,19-22H2,1-8H3/b27-17+,28-18+,29-23+,30-24+, ...].
biodb.DEBUG[2024-06-08 16:05:43.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:43.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:43.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:43.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:43.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:43.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:43.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:43.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.075][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.080][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.116][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.121][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.151][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.156][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.186][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.197][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.206][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.211][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.216][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.226][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:43.227][private$selectFields]
biodb.TRACE[2024-06-08 16:05:43.228][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:43.229][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:43.231][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:43.232][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.233][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.234][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.236][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.237][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.238][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.241][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.244][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.246][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.247][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.248][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.249][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.251][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.252][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.253][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.254][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.256][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.257][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.258][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.261][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.262][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.263][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.264][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.266][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.267][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.268][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.269][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.271][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.273][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.274][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.276][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.277][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.278][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.282][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.283][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.284][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.286][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.287][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.288][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.291][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.292][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.293][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.294][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.295][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.297][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.298][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.302][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.303][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.305][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.310][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.312][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.313][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.317][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.318][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.319][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.320][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.323][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.324][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.325][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.328][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.330][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.331][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.333][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.334][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.335][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.336][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.339][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.340][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.341][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.344][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.345][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.346][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.349][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.350][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.354][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.355][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.356][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.358][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.359][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.360][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.361][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:43.363][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:43.364][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.366][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.368][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.369][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.370][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.373][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.374][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.375][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.376][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.378][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.379][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.383][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.384][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.385][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.386][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.387][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.389][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.390][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.392][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.394][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.396][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.397][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.399][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.400][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.403][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.404][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.405][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.406][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.408][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.409][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.410][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.411][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.413][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.414][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.415][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.418][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.419][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.441][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.446][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.474][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.479][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.512][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.559][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.584][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.599][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.609][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.626][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [62447, 0, 62447, C30H50, InChI=1S/C30H50/c1-21(2)11-9-12-22(3)23-15-19-29(7)24(23)13-14-26-28(6)18-10-17-27(4,5)25(28)16-20-30(26,29)8/h11,23-26H,3,9-10,12-20H2,1-2,4-8H3/t23-,24-,25+,26-,28+,29-,30-/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:43.627][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:43.629][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:43.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:43.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:43.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:43.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:43.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:43.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:43.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:43.649][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=480.29*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:43.654][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:43.657][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7269bbea581f1e243800f8ee4e0f4fdb".
biodb.TRACE[2024-06-08 16:05:43.658][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:43.660][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7269bbea581f1e243800f8ee4e0f4fdb.content".
biodb.DEBUG[2024-06-08 16:05:43.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:43.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:43.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:43.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:43.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:43.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:43.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:43.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:43.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:43.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:43.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:43.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:43.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:43.705][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:43.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:43.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:43.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:43.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:43.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:43.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:43.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:43.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:43.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:43.736][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:43.751][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:43.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:43.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:43.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:43.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:43.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:43.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:43.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:43.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.777][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.782][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.797][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.802][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.807][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.827][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.832][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.857][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.872][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.877][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.882][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.887][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.892][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.897][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:43.899][private$selectFields]
biodb.TRACE[2024-06-08 16:05:43.900][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:43.901][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:43.902][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:43.904][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.905][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.908][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.909][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.910][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.913][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.916][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.918][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.919][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.921][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.922][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.923][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.925][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:43.926][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:43.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.929][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.930][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.932][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:43.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.934][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.935][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:43.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.940][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.942][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:43.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.944][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.946][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.947][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:43.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.949][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.951][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.952][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:43.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.955][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.956][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:43.957][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:43.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:43.962][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:43.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.964][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.966][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.967][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:43.968][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.969][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.971][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:43.972][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:43.973][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.974][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.976][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:43.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:43.978][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.979][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:43.983][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.984][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:43.986][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:43.987][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:43.988][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:43.989][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.012][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.014][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.015][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.037][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.039][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.040][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.042][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.043][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.045][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.046][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.049][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.051][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.052][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.057][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.058][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.061][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.063][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.064][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.066][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.067][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.069][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.070][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.071][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.073][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.074][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.076][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.078][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.079][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.080][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.082][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.083][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.084][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:44.085][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:44.087][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.089][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.090][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.091][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.092][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.094][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.095][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.096][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.097][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.101][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.103][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.105][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.106][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.107][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.112][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.113][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.115][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.118][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.120][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.125][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.126][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.129][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.130][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.132][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.134][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.136][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.137][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.140][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.141][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.143][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.145][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.146][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.148][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.149][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.150][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.152][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.153][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.154][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.155][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.157][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:44.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.174][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.179][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.184][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.205][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.210][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.215][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.220][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.225][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.239][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.249][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.254][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.259][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.299][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.305][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.320][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.326][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.349][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [4781, 0, 4781, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24+,25-/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:44.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:44.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:44.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:44.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:44.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:44.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:44.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:44.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.373][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.378][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.398][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.403][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.414][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.420][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.426][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.432][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.476][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.486][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.491][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.496][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.500][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.505][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:44.506][private$selectFields]
biodb.TRACE[2024-06-08 16:05:44.508][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:44.509][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:44.510][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:44.511][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.512][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.514][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.515][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.516][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.517][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.518][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.519][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.521][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.523][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.524][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.525][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.528][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.529][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.530][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.531][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.533][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.534][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.535][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.536][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.538][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.540][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.541][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.542][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.543][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.544][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.547][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.548][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.549][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.550][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.553][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.554][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.555][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.556][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.557][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.558][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.560][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.562][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.565][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.566][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.568][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.569][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.570][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.571][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.572][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.573][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.577][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.578][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.580][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.585][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.586][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.589][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.590][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.591][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.592][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.593][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.595][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.596][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.599][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.600][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.602][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.604][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.605][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.607][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.608][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.609][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.610][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.635][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.637][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.638][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.640][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.642][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.643][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.644][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.646][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.647][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.650][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.651][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.652][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.654][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.656][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.657][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:44.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.659][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.660][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:44.662][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:44.663][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.664][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.666][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.668][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.669][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.670][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.671][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.676][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.677][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.678][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.680][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.681][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.682][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.683][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.685][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.689][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.690][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.691][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.692][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.693][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.697][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.699][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.700][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.701][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.702][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.704][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.705][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.706][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.707][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.712][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.713][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.714][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.716][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.717][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.718][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.722][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.724][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:44.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.741][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.746][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.751][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.771][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.776][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.781][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.786][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.801][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.806][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.811][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.856][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:44.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.861][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.866][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.871][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:44.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:44.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.876][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.886][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:44.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:44.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.903][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [91601, 0, 91601, C29H40N2O4, InChI=1S/C29H40N2O4/c1-6-18-17-31-10-8-20-14-27(33-3)29(35-5)16-23(20)25(31)12-21(18)11-24-22-15-28(34-4)26(32-2)13-19(22)7-9-30-24/h13-16,18,21,24-25,30H,6-12,17H2,1-5H3/t18-,21-,24?,25?/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:44.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:44.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:44.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:44.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:44.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:44.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:44.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:44.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:44.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:44.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.928][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.933][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:44.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:44.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:44.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.947][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.952][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:44.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:44.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:44.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:44.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.972][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:44.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.977][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.982][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:44.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:44.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:44.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:44.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:44.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.006][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.031][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.036][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.041][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.046][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:45.047][private$selectFields]
biodb.TRACE[2024-06-08 16:05:45.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:45.049][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:45.050][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:45.051][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.054][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.055][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.056][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.058][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.060][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.061][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.062][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.064][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.065][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.066][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.068][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.070][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.071][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.072][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.074][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.076][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.077][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.078][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.079][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.082][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.083][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.084][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.085][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.087][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.089][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.090][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.092][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.093][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.094][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.095][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.096][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.098][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.099][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.100][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.101][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.102][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.104][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.105][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.106][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.107][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.109][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.110][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.111][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.113][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.115][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.116][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.117][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.118][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.120][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.122][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.123][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.124][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.127][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.128][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.129][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.131][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.132][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.133][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.136][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.137][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.138][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.139][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.142][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.143][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.146][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.147][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.148][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.149][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.152][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.153][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.155][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.158][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.159][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.160][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.162][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.163][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.164][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.165][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.166][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.168][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.169][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.171][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.172][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.174][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.175][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.176][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.177][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.179][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:45.180][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:45.181][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.182][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.185][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.186][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.189][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.190][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.193][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.195][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.196][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.198][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.200][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.201][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.202][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.203][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.204][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.206][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.207][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.209][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.211][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.212][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.213][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.214][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.215][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.217][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.219][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.220][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.222][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.224][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.225][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.227][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.229][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.230][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.232][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.234][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.235][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:45.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.252][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.262][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.359][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.364][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.369][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.378][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.393][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.433][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [95147, 0, 95147, C29H40N2O4, InChI=1S/C29H40N2O4/c1-3-18-16(2)14-22-20(18)10-11-21-19-6-4-8-26(33)30-13-5-7-24-28(34)27(29(35)31-24)25(32)12-9-17(19)15-23(21)22/h4,8,10-11,16-24,27H,3,5-7,9,12-15H2,1-2H3,(H,30,33)(H,31,35)/t16-,17-,18-,19+,20+,21-,22+,23+,24+,27?/m1/s1, ...].
biodb.DEBUG[2024-06-08 16:05:45.435][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:45.436][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.DEBUG[2024-06-08 16:05:45.440][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:45.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:45.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:45.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:45.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:45.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:45.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-08 16:05:45.463][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.17*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-06-08 16:05:45.467][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-06-08 16:05:45.469][cch$loadFileContent] Trying to load 1 files from cache: [1]: "acfa4b558978abf12409c2b56e678d03".
biodb.TRACE[2024-06-08 16:05:45.471][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-06-08 16:05:45.472][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/acfa4b558978abf12409c2b56e678d03.content".
biodb.DEBUG[2024-06-08 16:05:45.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:45.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:45.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:45.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:45.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:45.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:45.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:45.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:45.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:45.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:45.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:45.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:45.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:45.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:45.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:45.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:45.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:45.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:45.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:45.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:45.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:45.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:45.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:45.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-08 16:05:45.565][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-06-08 16:05:45.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:45.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:45.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:45.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:45.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:45.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:45.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:45.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.595][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.615][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.640][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.645][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.670][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.675][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.680][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.685][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.690][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.700][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.705][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.710][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:45.711][private$selectFields]
biodb.TRACE[2024-06-08 16:05:45.712][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:45.713][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:45.714][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:45.716][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.717][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.718][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.719][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.720][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.723][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.724][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.729][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.730][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.734][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.735][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.736][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.738][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.740][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.741][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.742][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.743][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.744][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.751][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.752][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.754][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.755][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.756][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.757][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.758][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.760][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.761][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.762][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.763][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.764][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.766][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.767][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.768][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.769][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.770][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.772][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.773][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.774][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.775][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.776][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.777][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.779][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.780][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.781][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.782][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.783][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.785][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.786][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.787][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.788][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.789][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.790][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.792][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.794][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.796][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.798][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.799][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.801][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.802][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.804][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.805][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.806][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.807][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.808][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.809][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.811][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.812][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.813][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.814][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.815][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.816][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.818][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.819][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.820][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.821][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.822][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.824][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.825][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.826][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.827][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.830][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.831][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.832][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.833][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.834][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.838][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.839][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.840][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.842][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:45.843][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.844][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.845][private$selectFields] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:45.846][private$organizeFieldsByGroups] Fields [12]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:45.848][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.849][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.852][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.854][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.857][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.858][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.859][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.860][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.862][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.865][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.866][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.868][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.870][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.871][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.872][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.873][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.875][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.876][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.878][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.879][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.880][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.882][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:45.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.884][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.885][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.886][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:45.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.889][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.890][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.891][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:45.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.893][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.894][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:45.896][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:45.897][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.898][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.899][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:45.901][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:45.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.903][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.904][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "kegg.compound.id", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:45.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:45.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:45.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.920][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.925][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:45.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:45.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:45.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:45.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:45.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:45.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:45.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:45.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:45.998][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:45.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.003][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.037][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.042][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.047][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.052][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.057][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.062][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.067][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.077][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.090][private$entriesToListOfDataframes] Entry converted to data frame: [1, 12]: [accession, charge, chebi.id, formula, inchi, ...] [636, 0, 636, C24H26O6, InChI=1S/C24H26O6/c1-12(2)6-7-14-19-17(11-16(26)22(14)28-5)29-18-10-15(25)13-8-9-24(3,4)30-23(13)20(18)21(19)27/h6,10-11,25-26H,7-9H2,1-5H3, ...].
biodb.DEBUG[2024-06-08 16:05:46.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:46.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:46.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:46.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:46.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:46.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:46.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:46.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.114][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.118][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.133][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.166][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.171][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.195][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.209][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.214][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.219][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.224][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.229][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.234][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:46.235][private$selectFields]
biodb.TRACE[2024-06-08 16:05:46.236][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:46.237][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:46.238][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:46.240][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.241][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.242][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.243][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.244][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.246][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.250][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.253][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.254][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.255][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.258][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.259][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.260][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.261][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.262][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.263][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.265][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.266][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.267][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.271][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.272][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.273][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.274][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.275][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.277][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.278][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.279][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.280][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.281][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.283][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.284][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.285][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.286][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.287][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.289][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.290][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.291][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.292][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.293][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.295][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.296][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.297][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.298][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.300][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.302][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.303][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.304][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.305][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.306][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.308][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.310][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.311][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.312][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.315][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.316][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.318][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.320][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.321][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.322][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.323][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.324][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.327][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.328][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.329][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.330][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.332][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.333][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.334][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.335][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.336][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.338][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.339][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.340][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.341][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.342][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.344][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.345][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.346][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.347][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.348][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.350][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.351][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.352][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.353][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.354][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.356][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.357][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.358][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.359][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.361][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.363][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.364][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:46.365][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:46.366][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.369][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.370][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.371][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.373][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.374][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.375][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.379][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.380][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.381][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.382][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.383][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.385][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.386][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.387][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.388][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.389][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.391][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.392][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.393][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.394][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.395][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.397][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.398][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.399][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.400][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.402][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.404][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.405][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.406][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.409][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.410][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.411][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.412][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.414][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.416][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.417][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.418][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.420][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:46.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.436][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.441][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.446][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.477][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.573][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.578][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.582][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.588][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.613][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.619][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.632][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [64199, 0, 64199, C24H27ClN2O2, InChI=1S/C24H26N2O2.ClH/c27-24(28)20-9-10-23-22(16-20)21(17-25-23)8-4-5-13-26-14-11-19(12-15-26)18-6-2-1-3-7-18;/h1-3,6-7,9-11,16-17,25H,4-5,8,12-15H2,(H,27,28);1H, ...].
biodb.DEBUG[2024-06-08 16:05:46.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-08 16:05:46.634][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:46.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:46.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:46.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:46.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:46.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-08 16:05:46.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.658][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.663][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.679][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.710][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.716][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.748][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.769][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.774][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.779][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.784][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:46.785][private$selectFields]
biodb.TRACE[2024-06-08 16:05:46.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-06-08 16:05:46.788][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-06-08 16:05:46.789][private$selectFields] Fields [13]: "accession, charge, chebi.id, formula, inchi, inchikey, kegg.compound.id, molecular.mass, monoisotopic.mass, n.stars, ..."
biodb.TRACE[2024-06-08 16:05:46.790][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.791][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.793][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.794][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.795][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.797][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.798][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.799][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.803][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.804][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.805][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.808][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.809][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.810][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.813][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.814][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.817][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.818][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.819][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.821][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.822][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.823][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.824][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.826][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.827][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.828][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.829][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.831][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.832][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.835][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.836][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.838][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.840][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.841][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.844][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.845][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.847][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.849][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.851][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.852][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.853][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.856][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.857][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.859][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.860][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.861][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.862][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.864][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.866][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.872][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.873][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.876][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.877][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.878][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.880][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.881][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.882][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.884][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.886][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.887][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.890][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-06-08 16:05:46.891][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.892][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.894][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.895][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.896][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.897][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.898][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.900][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.902][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.903][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.905][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.906][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.907][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.908][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.910][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.911][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.912][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.916][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.917][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.918][ef$get] Asked field names are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.919][ef$get] Realnames of fields are: peak.attr.
biodb.TRACE[2024-06-08 16:05:46.921][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.922][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.923][private$selectFields] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:46.924][private$organizeFieldsByGroups] Fields [11]: "accession, charge, chebi.id, formula, inchi, inchikey, molecular.mass, monoisotopic.mass, n.stars, name, ..."
biodb.TRACE[2024-06-08 16:05:46.926][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.927][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.928][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.929][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.930][ef$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:46.932][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:46.933][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.934][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.935][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:46.938][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.939][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.940][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:46.942][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:46.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.944][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:46.946][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:46.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.949][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.950][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.951][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:46.953][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.954][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.955][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.956][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:46.957][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.959][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:46.962][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.963][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.965][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.966][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:46.967][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.968][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.970][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:46.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:46.972][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.973][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:46.976][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:46.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.978][ef$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.980][private$organizeFieldsByGroups] Groups [2]: "c("accession", "charge", "chebi.id", "formula", "inchi", "inchikey", "molecular.mass", "monoisotopic.mass", "n.stars", "name", "smiles"), list()"
biodb.TRACE[2024-06-08 16:05:46.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-08 16:05:46.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-08 16:05:46.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.002][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:47.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:47.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.007][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:47.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:47.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-06-08 16:05:47.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-06-08 16:05:47.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:47.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:47.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:47.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-06-08 16:05:47.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-06-08 16:05:47.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.032][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:47.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:47.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:47.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:47.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.042][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-08 16:05:47.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-08 16:05:47.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:47.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:47.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.053][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:47.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:47.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-08 16:05:47.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-08 16:05:47.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:47.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.068][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:47.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:47.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-08 16:05:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-08 16:05:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:47.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:47.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:47.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:47.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-08 16:05:47.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:47.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:47.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:47.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:47.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-06-08 16:05:47.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.109][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:47.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:47.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:47.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:47.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.139][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-06-08 16:05:47.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-06-08 16:05:47.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:47.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.150][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:47.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:47.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-08 16:05:47.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-08 16:05:47.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:47.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:47.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.165][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:47.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:47.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-06-08 16:05:47.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-06-08 16:05:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.182][private$entriesToListOfDataframes] Entry converted to data frame: [1, 11]: [accession, charge, chebi.id, formula, inchi, ...] [65648, 0, 65648, C24H26O6, InChI=1S/C24H26O6/c1-13(2)9-10-23-20(27)22(28-5)11-14-19(26)18-15(25)7-6-8-16(18)29-24(14,23)17(12-22)21(3,4)30-23/h6-9,11,17,25H,10,12H2,1-5H3/t17-,22-,23-,24+/m0/s1, ...].
biodb.DEBUG[2024-06-08 16:05:47.183][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-06-08 16:05:47.184][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-06-08 16:05:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.197][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:47.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:47.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-08 16:05:47.202][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:47.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-06-08 16:05:47.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-08 16:05:47.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-08 16:05:47.212][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-08 16:05:47.214][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-06-08 16:05:47.218][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-06-08 16:05:47.219][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-08 16:05:47.220][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-08 16:05:47.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-08 16:05:47.222][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-08 16:05:47.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-08 16:05:47.224][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-08 16:05:47.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 1398 ]
> 
> proc.time()
   user  system elapsed 
 90.499   3.945 227.145

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbChebi_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc-longtests/meat/biodbChebi.Rcheck’
* using R version 4.4.0 Patched (2024-04-24 r86482)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.4
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.11.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

* installing *source* package ‘biodbChebi’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)