Back to Long Tests report for BioC 3.20

This page was generated on 2025-01-18 23:55 -0500 (Sat, 18 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4746
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4489
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4517
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 8/32HostnameOS / ArchCHECK
biodbHmdb 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-01-18 09:55 -0500 (Sat, 18 Jan 2025)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_20
git_last_commit: 0eb718c
git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  WARNINGS  
palomino8Windows Server 2022 Datacenter / x64  ERROR  
merida1macOS 12.7.5 Monterey / x86_64  ERROR  

CHECK results for biodbHmdb on palomino8

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

raw results


Summary

Package: biodbHmdb
Version: 1.12.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbHmdb_1.12.0.tar.gz
StartedAt: 2025-01-18 16:02:48 -0500 (Sat, 18 Jan 2025)
EndedAt: 2025-01-18 17:06:47 -0500 (Sat, 18 Jan 2025)
EllapsedTime: 3839.9 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbHmdb.Rcheck
Warnings: NA

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout.fail


R version 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-01-18 16:04:22.780][biodb::testContext]
biodb.INFO [2025-01-18 16:04:22.783][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-18 16:04:22.785][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-01-18 16:04:22.786][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-18 16:04:22.787][biodb::testContext]
biodb.INFO [2025-01-18 16:04:22.793][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-18 16:04:22.795][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-18 16:04:22.803][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 16:04:22.804][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-18 16:04:22.805][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-18 16:04:22.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.810][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-18 16:04:22.826][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-18 16:04:22.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.831][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-18 16:04:22.832][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-18 16:04:22.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.836][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-18 16:04:22.837][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-18 16:04:22.839][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-18 16:04:22.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.843][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-18 16:04:22.844][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-18 16:04:22.846][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-18 16:04:22.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.850][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-18 16:04:22.851][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-18 16:04:22.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.855][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-18 16:04:22.857][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-18 16:04:22.858][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-18 16:04:22.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.862][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-18 16:04:22.863][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-18 16:04:22.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.868][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-18 16:04:22.869][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-18 16:04:22.870][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-18 16:04:22.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.874][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-18 16:04:22.876][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-18 16:04:22.877][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-18 16:04:22.878][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-18 16:04:22.879][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-18 16:04:22.880][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-18 16:04:22.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.885][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-18 16:04:22.886][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-18 16:04:22.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.890][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-18 16:04:22.892][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-18 16:04:22.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.896][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-18 16:04:22.897][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-18 16:04:22.898][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.901][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-18 16:04:22.903][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-18 16:04:22.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.907][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-18 16:04:22.908][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-18 16:04:22.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.913][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-18 16:04:22.914][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-18 16:04:22.917][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-18 16:04:22.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.922][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-18 16:04:22.923][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-18 16:04:22.924][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-18 16:04:22.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:22.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:22.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:22.930][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-18 16:04:22.965][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:22.979][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-18 16:04:22.980][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:22.982][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:04:22.983][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:22.984][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:04:22.985][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:22.986][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:04:22.988][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-18 16:04:22.989][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:04:22.990][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:22.991][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-18 16:04:22.992][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:04:22.994][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:22.995][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:22.996][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 16:04:22.996][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-18 16:04:22.996][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-18 16:04:22.996][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-18 16:04:22.996][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-18 16:04:22.997][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:04:22.999][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.000][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.001][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:04:23.002][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.003][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.004][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.005][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.006][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:04:23.008][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:04:23.009][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.010][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.011][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-18 16:04:23.013][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.014][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-18 16:04:23.016][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.017][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:04:23.018][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.019][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.020][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.021][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.023][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-18 16:04:23.024][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:04:23.025][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.026][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-18 16:04:23.027][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:04:23.029][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.030][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.031][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 16:04:23.031][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-18 16:04:23.031][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-18 16:04:23.031][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-18 16:04:23.031][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-18 16:04:23.032][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:04:23.033][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.034][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.035][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:04:23.037][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.038][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.039][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.040][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.041][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:04:23.042][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:04:23.043][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.045][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.046][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-18 16:04:23.048][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.049][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-18 16:04:23.050][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.051][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:04:23.053][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.054][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.055][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.056][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.057][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-18 16:04:23.058][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:04:23.060][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.061][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-18 16:04:23.062][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:04:23.063][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.064][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.066][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.067][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:04:23.068][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.069][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.070][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:04:23.071][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.073][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.074][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.075][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.077][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:04:23.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:04:23.079][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.080][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.081][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-18 16:04:23.083][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.085][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-18 16:04:23.086][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.087][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:04:23.088][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.089][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.090][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.093][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-18 16:04:23.094][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:04:23.095][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.096][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-18 16:04:23.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:04:23.099][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.100][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.101][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.102][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:04:23.103][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.105][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.106][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:04:23.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.109][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.110][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.111][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:04:23.112][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:04:23.114][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.115][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.118][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 16:04:23.119][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.143][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.154][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.217][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-18 16:04:23.221][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-18 16:04:23.223][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-18 16:04:23.225][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-18 16:04:23.226][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-18 16:04:23.228][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-18 16:04:23.229][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-18 16:04:23.231][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-18 16:04:23.233][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-18 16:04:23.234][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-18 16:04:23.236][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-18 16:04:23.237][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-18 16:04:23.239][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-18 16:04:23.240][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-18 16:04:23.242][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-18 16:04:23.243][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-18 16:04:23.245][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-18 16:04:23.247][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-18 16:04:23.248][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-18 16:04:23.250][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-18 16:04:23.251][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-18 16:04:23.253][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-18 16:04:23.254][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-18 16:04:23.256][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-18 16:04:23.257][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-18 16:04:23.259][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-18 16:04:23.261][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-18 16:04:23.262][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-18 16:04:23.264][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-18 16:04:23.265][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-18 16:04:23.267][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-18 16:04:23.268][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-18 16:04:23.270][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-18 16:04:23.272][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-18 16:04:23.273][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-18 16:04:23.275][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-18 16:04:23.276][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-18 16:04:23.278][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-18 16:04:23.279][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-18 16:04:23.281][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-18 16:04:23.282][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-18 16:04:23.284][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-18 16:04:23.286][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-18 16:04:23.287][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-18 16:04:23.289][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-18 16:04:23.290][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-18 16:04:23.292][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-18 16:04:23.293][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-18 16:04:23.295][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-18 16:04:23.297][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-18 16:04:23.298][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-18 16:04:23.300][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-18 16:04:23.301][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-18 16:04:23.303][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-18 16:04:23.304][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-18 16:04:23.306][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-18 16:04:23.308][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-18 16:04:23.309][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-18 16:04:23.311][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-18 16:04:23.312][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-18 16:04:23.314][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-18 16:04:23.315][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-18 16:04:23.317][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-18 16:04:23.319][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-18 16:04:23.320][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-18 16:04:23.322][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-18 16:04:23.323][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-18 16:04:23.325][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-18 16:04:23.326][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-18 16:04:23.328][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-18 16:04:23.329][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-18 16:04:23.331][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-18 16:04:23.333][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-18 16:04:23.334][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-18 16:04:23.336][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-18 16:04:23.337][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-18 16:04:23.339][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-18 16:04:23.340][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-18 16:04:23.342][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-18 16:04:23.344][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-18 16:04:23.345][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-18 16:04:23.347][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-18 16:04:23.348][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-18 16:04:23.381][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-18 16:04:23.384][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-18 16:04:23.387][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 16:04:23.388][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.390][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.560][biodb$getConfig()$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-18 16:04:23.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:04:23.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:04:23.576][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbHmdb.Rcheck/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-18 16:04:23.591][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-18 16:04:23.595][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.597][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.599][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.601][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:04:23.603][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.605][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-18 16:04:23.607][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.608][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.610][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-18 16:04:23.612][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:04:23.614][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.616][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-18 16:04:23.618][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-18 16:04:23.620][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-18 16:04:23.622][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-18 16:04:23.624][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 16:04:23.624][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-18 16:04:23.624][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-18 16:04:23.626][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-18 16:04:23.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.631][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:04:23.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:04:23.635][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:04:23.636][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:04:23.638][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-18 16:04:23.638][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-18 16:04:23.639][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:04:23.640][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:04:23.641][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-18 16:04:23.642][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:04:23.648][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-18 16:04:23.649][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-18 16:04:23.651][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-18 16:04:23.653][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-18 16:04:23.654][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-18 16:04:23.701][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-18 16:04:23.703][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-18 16:04:23.706][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-18 16:04:23.710][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-18 16:04:23.714][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-18 16:04:23.715][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-18 16:04:23.716][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-18 16:04:23.718][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.INFO [2025-01-18 16:04:23.727][biodb::testThat]
biodb.INFO [2025-01-18 16:04:23.728][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-18 16:04:23.730][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 16:04:23.731][biodb::testThat]
biodb.TRACE[2025-01-18 16:04:23.737][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbHmdb.Rcheck/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-01-18 16:04:23.739][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-18 16:04:23.742][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-18 16:04:23.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-18 16:04:23.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:04:23.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:04:23.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:04:23.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:04:23.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:04:23.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-18 16:04:23.781][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:23.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:23.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.785][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:23.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:23.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.802][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:23.804][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:23.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.806][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.829][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:23.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:23.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.835][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:23.836][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:23.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.839][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.840][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:23.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:23.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.845][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:23.847][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:23.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.849][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.851][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:23.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:23.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:23.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:23.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.859][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:23.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.866][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:23.867][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:23.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.870][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:23.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:23.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.876][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:23.878][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:23.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.880][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.882][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:23.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:23.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.887][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:23.888][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:23.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.890][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.902][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:23.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:23.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.907][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:23.908][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:23.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.911][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.912][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.917][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:23.918][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:23.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.921][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.922][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:23.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:23.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.927][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:23.929][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:23.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.931][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:23.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:23.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.937][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:23.939][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:23.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.941][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:23.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:23.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.947][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:23.949][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:23.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.951][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:23.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:23.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:23.959][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:23.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.961][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:23.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:23.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.968][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:23.969][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:23.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.971][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:23.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:23.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.977][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:23.979][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:23.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.981][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.982][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:23.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:23.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:23.989][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:23.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.991][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.992][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:23.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:23.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:23.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:23.997][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-18 16:04:23.999][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.001][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.002][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-18 16:04:24.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.049][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.054][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.069][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:24.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:24.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.074][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:24.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:24.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.078][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:24.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:24.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.112][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.117][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.122][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.127][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:24.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:24.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.131][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:24.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:24.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.136][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:24.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:24.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.141][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.146][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.150][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.155][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.160][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.170][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.174][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.179][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:24.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:24.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:24.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:24.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:24.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:24.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.213][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.217][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.222][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.260][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.265][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.270][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.275][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.279][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.284][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.289][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:24.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:24.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.294][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:24.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:24.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.299][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:24.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:24.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.303][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-18 16:04:24.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.318][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.323][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-18 16:04:24.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:24.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.362][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.367][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.372][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.381][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 16:04:24.420][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-18 16:04:24.423][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 16:04:24.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 16:04:24.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.428][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 16:04:24.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 16:04:24.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.433][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 16:04:24.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 16:04:24.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.437][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 16:04:24.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 16:04:24.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.480][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.521][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.526][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.531][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 16:04:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.559][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.561][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.563][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:24.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.579][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.584][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.589][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.594][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.595][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.598][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.605][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:24.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.634][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.635][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.637][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:24.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.653][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.658][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.663][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.667][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.669][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.671][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.672][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:24.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.691][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.704][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:24.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.720][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.725][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.734][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.738][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.739][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:24.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.763][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.768][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.770][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.772][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:24.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:24.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.792][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.797][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.802][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.807][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.808][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.811][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.812][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:24.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:24.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.831][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.841][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.844][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:24.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:24.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.860][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.865][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.870][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.875][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.876][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.878][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.879][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:24.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.908][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.909][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.912][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:24.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.927][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.932][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.937][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.942][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.943][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.946][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.947][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:24.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.961][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.971][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.976][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.981][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.982][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.985][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:24.986][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:24.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:24.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.006][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.010][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.015][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.017][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.020][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.034][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:25.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:25.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:25.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:25.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.044][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:25.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:25.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.049][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:25.050][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:25.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.052][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.053][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:25.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:25.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:25.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:25.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:25.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:25.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:25.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:25.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.082][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:25.083][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:25.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.086][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:25.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:25.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.117][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.119][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.134][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.139][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.144][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.154][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.155][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.158][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.159][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.173][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:04:25.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:04:25.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.177][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.184][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 16:04:25.185][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 16:04:25.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.187][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.194][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.195][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:04:25.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.197][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 16:04:25.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 16:04:25.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.207][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.214][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:25.215][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 16:04:25.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.217][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.224][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:25.225][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 16:04:25.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.227][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.234][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.235][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 16:04:25.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.237][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.244][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:25.245][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 16:04:25.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.248][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.254][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-18 16:04:25.255][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 16:04:25.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.258][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.264][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:04:25.265][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:04:25.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.267][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:04:25.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:04:25.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.277][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.283][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.285][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:04:25.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.287][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:25.295][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 16:04:25.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.297][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.303][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:25.304][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 16:04:25.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.307][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.313][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:25.314][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:25.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.316][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.323][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:25.324][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 16:04:25.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.326][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.332][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:25.334][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 16:04:25.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.336][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:04:25.342][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 16:04:25.343][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 16:04:25.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:25.346][ef$get] fields variable is a list.
biodb.INFO [2025-01-18 16:04:25.362][biodb::testThat]
biodb.INFO [2025-01-18 16:04:25.363][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-18 16:04:25.364][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 16:04:25.365][biodb::testThat]
biodb.DEBUG[2025-01-18 16:04:25.379][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-18 16:04:25.385][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.INFO [2025-01-18 16:04:25.391][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34" for "hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34".
biodb.DEBUG[2025-01-18 16:04:25.393][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-01-18 16:04:25.394][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-01-18 16:04:25.395][private$doDownload] Downloading HMDB metabolite database at "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip" ...
biodb.DEBUG[2025-01-18 16:04:25.398][sched$downloadFile] Downloading file "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
trying URL 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip'
Content type 'application/zip' length 953913010 bytes (909.7 MB)

downloaded 5.2 MB

biodb.INFO [2025-01-18 16:04:26.601][biodb::testThat]
biodb.INFO [2025-01-18 16:04:26.602][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-18 16:04:26.603][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 16:04:26.604][biodb::testThat]
biodb.TRACE[2025-01-18 16:04:26.608][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:04:26.609][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:04:26.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:04:26.611][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-18 16:04:26.613][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.DEBUG[2025-01-18 16:04:26.636][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-18 16:04:26.682][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-18 16:04:26.684][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-01-18 16:04:26.685][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-01-18 16:04:26.687][private$doDownload] Downloading HMDB metabolite database at "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip" ...
biodb.DEBUG[2025-01-18 16:04:26.700][sched$downloadFile] Downloading file "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
trying URL 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip'
Content type 'application/zip' length 953913010 bytes (909.7 MB)
=============================
downloaded 539.8 MB

biodb.INFO [2025-01-18 16:05:55.689][biodb::testThat]
biodb.INFO [2025-01-18 16:05:55.691][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-18 16:05:55.692][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 16:05:55.693][biodb::testThat]
biodb.DEBUG[2025-01-18 16:05:55.703][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-18 16:05:55.704][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-18 16:05:55.706][self$isDownloaded] Database hmdb.metabolites has not yet been downloaded.
biodb.INFO [2025-01-18 16:05:55.707][self$download] Downloading whole database of hmdb.metabolites.
biodb.INFO [2025-01-18 16:05:55.709][private$doDownload] Downloading HMDB metabolite database at "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip" ...
biodb.DEBUG[2025-01-18 16:05:55.711][sched$downloadFile] Downloading file "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
trying URL 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip'
Content type 'application/zip' length 953913010 bytes (909.7 MB)
==================================================
downloaded 909.7 MB

biodb.TRACE[2025-01-18 16:07:36.804][cch$addFilesToCache] Moving files to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp\hmdb.metabolites5547acc451azip".
biodb.TRACE[2025-01-18 16:07:36.806][private$doAddFilesToCache] Destination files are [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-01-18 16:07:36.954][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-18 16:07:36.956][self$getDownloadPath] Download path of hmdb.metabolites is "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-01-18 16:07:36.958][self$download] Downloading of hmdb.metabolites completed.
biodb.TRACE[2025-01-18 16:07:36.961][self$addFilesToCache] Moving files to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp\marker55426df4b33marker".
biodb.TRACE[2025-01-18 16:07:36.962][private$doAddFilesToCache] Destination files are [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/downloaded.marker".
biodb.DEBUG[2025-01-18 16:07:36.969][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-18 16:07:36.970][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-18 16:07:36.972][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-01-18 16:07:36.973][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.DEBUG[2025-01-18 16:07:36.975][self$getDownloadPath] Download path of hmdb.metabolites is "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip".
biodb.DEBUG[2025-01-18 16:07:36.976][private$doExtractDownload] Unzipping C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip into C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp...
biodb.DEBUG[2025-01-18 16:08:09.254][private$findXmlDatabaseFile] Found files [3]: "hmdb.metabolites5543f1a2100zip, hmdb.metabolites5548533e13zip, hmdb_metabolites.xml" into C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/download.zip.
biodb.DEBUG[2025-01-18 16:08:09.256][private$findXmlDatabaseFile] Found XML file C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp/hmdb_metabolites.xml in ZIP file.
biodb.DEBUG[2025-01-18 16:08:09.257][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-01-18 16:08:09.260][private$doExtractDownload] Extract entries from XML file "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp/hmdb_metabolites.xml", into "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp".
biodb.TRACE[2025-01-18 16:50:36.929][self$addFilesToCache] Moving files to cache [217920]: "C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000001.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000002.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000005.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000008.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000010.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000011.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000012.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000014.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000015.xml, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/HMDB0000016.xml, ...".
biodb.TRACE[2025-01-18 16:50:38.010][private$doAddFilesToCache] Destination files are [217920]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000005.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000008.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000010.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000011.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000012.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000014.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000015.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000016.xml, ...".
biodb.DEBUG[2025-01-18 17:06:40.403][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-18 17:06:40.406][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-01-18 17:06:40.458][self$addFilesToCache] Moving files to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp\marker5541e3e4e33marker".
biodb.TRACE[2025-01-18 17:06:40.461][private$doAddFilesToCache] Destination files are [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/extracted.marker".
biodb.DEBUG[2025-01-18 17:06:40.471][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-01-18 17:06:40.474][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-18 17:06:40.476][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-18 17:06:40.493][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-18 17:06:40.495][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-18 17:06:40.522][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-18 17:06:40.524][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-18 17:06:40.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-18 17:06:40.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:06:40.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:06:40.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:06:40.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:06:40.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:06:40.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-18 17:06:40.551][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:40.552][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:40.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.555][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:40.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.562][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:40.564][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:40.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.566][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.568][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:40.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:40.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.574][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.575][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.577][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.579][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.584][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.586][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.588][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.590][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.598][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.605][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.606][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.608][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.616][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.617][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.619][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.621][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.626][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:40.627][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:40.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.629][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.631][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:40.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:40.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.636][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.638][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.640][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.642][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.648][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.649][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.652][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.659][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:06:40.661][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:06:40.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.663][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:06:40.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:06:40.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.671][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:06:40.672][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:06:40.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.675][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:06:40.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:06:40.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.682][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.684][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.686][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.688][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.694][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.695][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.698][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:40.707][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:40.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.709][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:40.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:40.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.717][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:40.718][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:40.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.721][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.722][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:40.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:40.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.728][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 17:06:40.729][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 17:06:40.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.732][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 17:06:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 17:06:40.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.739][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-18 17:06:40.741][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.744][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.745][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-18 17:06:40.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:40.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:40.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:40.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:40.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:40.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.768][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.774][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.779][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-18 17:06:40.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.785][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.790][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.795][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:06:40.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-18 17:06:40.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-18 17:06:40.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.834][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.840][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.845][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-18 17:06:40.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.856][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.862][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-18 17:06:40.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.867][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.873][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.879][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-18 17:06:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.884][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:40.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:40.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.890][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:40.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:40.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:40.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:40.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:06:40.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:06:40.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.907][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:06:40.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:06:40.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.912][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:06:40.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:06:40.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:06:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:06:40.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.923][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:06:40.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:06:40.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:06:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:06:40.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:40.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.951][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.957][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.962][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-18 17:06:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-18 17:06:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.990][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:40.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:40.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:40.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:40.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:40.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.060][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:41.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:41.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.066][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:41.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:41.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.070][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:41.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-18 17:06:41.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.075][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:41.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:41.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.080][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:41.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:41.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.085][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:41.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:41.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 17:06:41.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 17:06:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 17:06:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 17:06:41.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-18 17:06:41.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-18 17:06:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-18 17:06:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.123][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-18 17:06:41.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:06:41.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.133][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 17:06:41.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 17:06:41.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.157][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 17:06:41.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 17:06:41.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.167][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 17:06:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-18 17:06:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:06:41.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:06:41.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 17:06:41.200][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-18 17:06:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:41.217][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:41.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:41.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 17:06:41.254][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-18 17:06:41.256][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-18 17:06:41.257][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-18 17:06:41.261][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-18 17:06:41.263][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-18 17:06:41.265][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-18 17:06:41.267][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-18 17:06:41.268][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-18 17:06:41.269][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-18 17:06:43.078][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-18 17:06:43.081][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml, HMDB0000005.xml, HMDB0000008.xml, HMDB0000010.xml, HMDB0000011.xml
biodb.DEBUG[2025-01-18 17:06:43.266][private$doGetEntryIds] COUNT IDS = 217920
biodb.DEBUG[2025-01-18 17:06:43.319][private$doSearchForEntries] All IDs = [217920]: "HMDB0000001, HMDB0000002, HMDB0000005, HMDB0000008, HMDB0000010, HMDB0000011, HMDB0000012, HMDB0000014, HMDB0000015, HMDB0000016, ..."
biodb.DEBUG[2025-01-18 17:06:43.321][private$doSearchForEntries] Total number of IDs = 217920
biodb.TRACE[2025-01-18 17:06:43.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:43.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:43.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:43.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:43.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:43.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:43.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 17:06:43.343][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-18 17:06:43.344][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-18 17:06:43.370][biodb::testThat]
biodb.INFO [2025-01-18 17:06:43.371][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-18 17:06:43.372][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:06:43.373][biodb::testThat]
biodb.TRACE[2025-01-18 17:06:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.402][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.407][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 17:06:43.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 17:06:43.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.412][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 17:06:43.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 17:06:43.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.453][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.458][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:06:43.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 17:06:43.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 17:06:43.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 17:06:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 17:06:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:43.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-18 17:06:43.481][biodb::testThat]
biodb.INFO [2025-01-18 17:06:43.483][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-18 17:06:43.484][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:06:43.485][biodb::testThat]
biodb.INFO [2025-01-18 17:06:43.497][biodb::testThat]
biodb.INFO [2025-01-18 17:06:43.498][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-18 17:06:43.499][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:06:43.500][biodb::testThat]
biodb.INFO [2025-01-18 17:06:43.511][biodb::testThat]
biodb.INFO [2025-01-18 17:06:43.512][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-18 17:06:43.513][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:06:43.514][biodb::testThat]
biodb.DEBUG[2025-01-18 17:06:43.519][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-18 17:06:44.323][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-18 17:06:46.241][biodb::testThat]
biodb.INFO [2025-01-18 17:06:46.243][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-18 17:06:46.244][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:06:46.245][biodb::testThat]
biodb.DEBUG[2025-01-18 17:06:46.416][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-18 17:06:46.831][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:46.833][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:46.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:46.835][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:46.837][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:46.838][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:46.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:46.840][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:46.841][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:46.843][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:46.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:46.845][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:46.846][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:06:46.848][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:06:46.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:46.850][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:46.851][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-18 17:06:46.852][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-18 17:06:46.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:46.855][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:06:46.856][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:46.857][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-18 17:06:46.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:06:46.860][ef$get] fields variable is a list.
biodb.INFO [2025-01-18 17:06:46.861][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-18 17:06:46.862][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-18 17:06:46.864][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-18 17:06:46.865][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-18 17:06:46.866][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:06:46.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:06:46.868][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:06:46.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:06:46.870][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:06:46.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 2 | WARN 4 | SKIP 0 | PASS 124 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:42:1'): RT unit is defined when there is an RT value. ──
Error in `utils::download.file(url = url, destfile = dest.file, mode = "wb", 
    method = "auto", cacheOK = FALSE, quiet = FALSE)`: download from 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip' failed
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getBiodb()$getFactory()$getEntry(...)
 4.     └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 5.       └─conn$getEntryContent(ids)
 6.         └─self$download()
 7.           └─private$doDownload()
 8.             └─sched$downloadFile(url = zip.url, dest.file = tmpFile)
 9.               └─utils::download.file(...)
── Error ('test_long_100_generic.R:42:1'): We can search for an entry by searchable field ──
Error in `utils::download.file(url = url, destfile = dest.file, mode = "wb", 
    method = "auto", cacheOK = FALSE, quiet = FALSE)`: download from 'http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip' failed
Backtrace:
     ▆
  1. ├─base::do.call(fct, params)
  2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
  3.   └─conn$getEntry(id, drop = TRUE)
  4.     └─private$bdb$getFactory()$getEntry(self$getId(), id = id, drop = drop)
  5.       └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
  6.         └─conn$getEntryContent(ids)
  7.           └─self$download()
  8.             └─private$doDownload()
  9.               └─sched$downloadFile(url = zip.url, dest.file = tmpFile)
 10.                 └─utils::download.file(...)

[ FAIL 2 | WARN 4 | SKIP 0 | PASS 124 ]
Error: Test failures
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbHmdb_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbHmdb.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using options '--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error'
* checking for file 'biodbHmdb/DESCRIPTION' ... OK
* this is package 'biodbHmdb' version '1.12.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbHmdb' can be installed ... WARNING
Found the following significant warnings:
  EntryMaker.hpp:23:21: warning: 'EntryMaker::accession_tag' will be initialized after [-Wreorder]
  EntryMaker.hpp:22:14: warning:   'bool EntryMaker::closed' [-Wreorder]
  EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
See 'F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbHmdb.Rcheck/00install.out' for details.
* used C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: 'zip'
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  'HmdbMetabolitesConn' 'HmdbMetabolitesEntry' 'hmdbToSqlite'
All user-level objects in a package should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking files in 'vignettes' ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in 'longtests' ... OK
* checking tests in 'longtests' ...
  Running 'testthat.R'
 ERROR
Running the tests in 'longtests/testthat.R' failed.
Last 13 lines of output:
       ▆
    1. ├─base::do.call(fct, params)
    2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
    3.   └─conn$getEntry(id, drop = TRUE)
    4.     └─private$bdb$getFactory()$getEntry(self$getId(), id = id, drop = drop)
    5.       └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
    6.         └─conn$getEntryContent(ids)
    7.           └─self$download()
    8.             └─private$doDownload()
    9.               └─sched$downloadFile(url = zip.url, dest.file = tmpFile)
   10.                 └─utils::download.file(...)
  
  [ FAIL 2 | WARN 4 | SKIP 0 | PASS 124 ]
  Error: Test failures
  Execution halted
* DONE

Status: 1 ERROR, 2 WARNINGs, 1 NOTE
See
  'F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbHmdb.Rcheck/00check.log'
for details.

Installation output

biodbHmdb.Rcheck/00install.out

* installing *source* package 'biodbHmdb' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor 'EntryMaker::EntryMaker()':
EntryMaker.hpp:23:21: warning: 'EntryMaker::accession_tag' will be initialized after [-Wreorder]
   23 |         TagDetector accession_tag;
      |                     ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning:   'bool EntryMaker::closed' [-Wreorder]
   22 |         bool closed;
      |              ^~~~~~
EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
    5 | EntryMaker::EntryMaker() :
      | ^~~~~~~~~~
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -s -static-libgcc -o biodbHmdb.dll tmp.def EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbHmdb.Rcheck/00LOCK-biodbHmdb/00new/biodbHmdb/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  'biodbHmdb' 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)