Back to Long Tests report for BioC 3.20

This page was generated on 2024-06-15 23:55 -0400 (Sat, 15 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4685
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4420
lconwaymacOS 12.7.1 Montereyx86_644.4.1 RC (2024-06-06 r86719) -- "Race for Your Life" 4400
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 11/32HostnameOS / ArchCHECK
biodbNci 1.9.0  (landing page)
Pierrick Roger
Snapshot Date: 2024-06-15 09:55 -0400 (Sat, 15 Jun 2024)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: devel
git_last_commit: 12acfea
git_last_commit_date: 2024-04-30 11:41:04 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK  
palomino4Windows Server 2022 Datacenter / x64  OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK  

CHECK results for biodbNci on palomino4

To the developers/maintainers of the biodbNci 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: biodbNci
Version: 1.9.0
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 biodbNci_1.9.0.tar.gz
StartedAt: 2024-06-15 16:25:40 -0400 (Sat, 15 Jun 2024)
EndedAt: 2024-06-15 16:33:43 -0400 (Sat, 15 Jun 2024)
EllapsedTime: 482.9 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbNci.Rcheck
Warnings: 0

Tests output

biodbNci.Rcheck/tests/testthat.Rout


R version 4.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbNci)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbNci")
biodb.INFO [2024-06-15 16:33:37.115][biodb::testContext]
biodb.INFO [2024-06-15 16:33:37.130][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-15 16:33:37.132][biodb::testContext] Test context - Generic long tests
biodb.INFO [2024-06-15 16:33:37.134][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-15 16:33:37.136][biodb::testContext]
biodb.INFO [2024-06-15 16:33:37.146][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-15 16:33:37.150][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-15 16:33:37.162][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-15 16:33:37.164][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-15 16:33:37.166][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-15 16:33:37.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.173][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-15 16:33:37.201][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-15 16:33:37.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.207][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[2024-06-15 16:33:37.209][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-15 16:33:37.211][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-15 16:33:37.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.218][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-15 16:33:37.220][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-15 16:33:37.222][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-15 16:33:37.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.226][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[2024-06-15 16:33:37.228][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-15 16:33:37.230][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-15 16:33:37.232][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-15 16:33:37.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.238][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-15 16:33:37.240][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-15 16:33:37.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.245][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[2024-06-15 16:33:37.247][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-15 16:33:37.249][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-15 16:33:37.251][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-15 16:33:37.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.258][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-15 16:33:37.260][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-15 16:33:37.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.266][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[2024-06-15 16:33:37.268][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-15 16:33:37.270][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-15 16:33:37.272][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-15 16:33:37.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.279][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-15 16:33:37.281][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-15 16:33:37.283][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-15 16:33:37.285][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-15 16:33:37.287][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-15 16:33:37.289][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-15 16:33:37.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.294][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[2024-06-15 16:33:37.296][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-15 16:33:37.298][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-15 16:33:37.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.304][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-15 16:33:37.306][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-15 16:33:37.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.310][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[2024-06-15 16:33:37.312][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-15 16:33:37.314][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-15 16:33:37.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.320][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-15 16:33:37.322][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-15 16:33:37.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.327][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[2024-06-15 16:33:37.328][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-15 16:33:37.330][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-15 16:33:37.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.336][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-15 16:33:37.338][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-15 16:33:37.343][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-15 16:33:37.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.348][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[2024-06-15 16:33:37.350][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-15 16:33:37.352][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-15 16:33:37.353][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-15 16:33:37.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:37.363][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-15 16:33:37.410][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.426][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-15 16:33:37.428][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.430][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:37.431][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.433][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.435][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.437][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.439][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-15 16:33:37.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:37.443][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.445][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-15 16:33:37.447][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:37.449][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.451][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.453][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-15 16:33:37.453][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-15 16:33:37.453][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-15 16:33:37.453][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-15 16:33:37.453][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-15 16:33:37.455][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:37.457][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:37.462][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.464][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.466][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.467][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.469][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:37.471][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:37.473][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.475][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.477][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-15 16:33:37.480][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.482][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-15 16:33:37.483][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.485][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:37.487][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.489][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.491][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.493][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.495][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-15 16:33:37.496][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:37.498][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.500][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-15 16:33:37.502][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:37.504][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.505][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.507][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-15 16:33:37.507][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-15 16:33:37.507][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-15 16:33:37.507][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-15 16:33:37.507][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-15 16:33:37.509][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:37.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.514][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:37.516][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.517][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.519][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.520][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.521][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:37.523][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:37.524][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.525][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.527][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-15 16:33:37.529][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.530][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-15 16:33:37.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.534][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:37.536][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.538][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.540][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.542][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.544][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-15 16:33:37.546][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:37.548][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.550][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-15 16:33:37.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:37.554][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.556][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.558][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.560][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:37.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.565][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:37.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.568][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.569][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.570][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.571][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:37.572][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:37.573][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.575][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.576][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-15 16:33:37.578][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.579][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-15 16:33:37.581][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.582][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:37.583][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.585][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.587][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.589][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.591][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-15 16:33:37.593][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:37.595][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.597][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-15 16:33:37.599][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:37.601][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.603][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:37.605][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.607][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:37.609][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.611][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.613][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:37.615][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:37.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:37.618][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:37.620][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:37.624][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:37.626][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:37.628][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:37.634][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-15 16:33:37.635][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.637][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[2024-06-15 16:33:37.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.645][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[2024-06-15 16:33:37.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.654][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[2024-06-15 16:33:37.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.663][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[2024-06-15 16:33:37.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.672][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[2024-06-15 16:33:37.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.681][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[2024-06-15 16:33:37.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.699][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[2024-06-15 16:33:37.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.708][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[2024-06-15 16:33:37.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.718][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[2024-06-15 16:33:37.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.726][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[2024-06-15 16:33:37.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.733][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[2024-06-15 16:33:37.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.741][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[2024-06-15 16:33:37.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.751][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[2024-06-15 16:33:37.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.760][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[2024-06-15 16:33:37.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.769][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[2024-06-15 16:33:37.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.778][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[2024-06-15 16:33:37.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.787][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[2024-06-15 16:33:37.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:37.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:37.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:37.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:37.796][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[2024-06-15 16:33:37.798][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-15 16:33:37.804][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-15 16:33:37.807][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-15 16:33:37.809][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-15 16:33:37.812][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-15 16:33:37.815][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-15 16:33:37.818][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-15 16:33:37.820][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-15 16:33:37.823][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-15 16:33:37.825][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-15 16:33:37.828][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-15 16:33:37.830][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-15 16:33:37.832][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-15 16:33:37.835][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-15 16:33:37.837][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-15 16:33:37.839][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-15 16:33:37.842][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-15 16:33:37.844][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-15 16:33:37.846][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-15 16:33:37.849][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-15 16:33:37.851][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-15 16:33:37.854][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-15 16:33:37.856][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-15 16:33:37.859][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-15 16:33:37.861][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-15 16:33:37.864][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-15 16:33:37.867][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-15 16:33:37.869][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-15 16:33:37.872][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-15 16:33:37.874][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-15 16:33:37.876][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-15 16:33:37.879][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-15 16:33:37.881][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-15 16:33:37.883][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-15 16:33:37.886][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-15 16:33:37.888][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-15 16:33:37.890][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-15 16:33:37.893][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-15 16:33:37.895][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-15 16:33:37.898][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-15 16:33:37.900][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-15 16:33:37.902][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-15 16:33:37.905][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-15 16:33:37.907][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-15 16:33:37.909][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-15 16:33:37.912][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-15 16:33:37.915][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-15 16:33:37.918][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-15 16:33:37.920][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-15 16:33:37.922][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-15 16:33:37.925][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-15 16:33:37.927][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-15 16:33:37.930][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-15 16:33:37.932][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-15 16:33:37.934][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-15 16:33:37.937][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-15 16:33:37.940][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-15 16:33:37.942][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-15 16:33:37.945][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-15 16:33:37.948][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-15 16:33:37.950][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-15 16:33:37.953][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-15 16:33:37.955][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-15 16:33:37.958][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-15 16:33:37.961][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-15 16:33:37.964][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-15 16:33:37.966][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-15 16:33:37.969][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-15 16:33:37.971][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-15 16:33:37.973][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-15 16:33:37.976][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-15 16:33:37.978][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-15 16:33:37.981][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-15 16:33:37.983][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-15 16:33:37.986][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-15 16:33:37.988][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-15 16:33:37.991][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-15 16:33:37.993][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-15 16:33:37.995][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-15 16:33:37.998][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-15 16:33:38.000][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-15 16:33:38.003][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-15 16:33:38.005][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-15 16:33:38.070][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-15 16:33:38.075][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-15 16:33:38.080][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-15 16:33:38.082][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.086][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.088][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[2024-06-15 16:33:38.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.106][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[2024-06-15 16:33:38.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.119][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[2024-06-15 16:33:38.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.131][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[2024-06-15 16:33:38.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.143][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[2024-06-15 16:33:38.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.155][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[2024-06-15 16:33:38.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.167][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[2024-06-15 16:33:38.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.179][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[2024-06-15 16:33:38.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.191][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[2024-06-15 16:33:38.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.203][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[2024-06-15 16:33:38.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.215][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[2024-06-15 16:33:38.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.227][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[2024-06-15 16:33:38.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.240][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[2024-06-15 16:33:38.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.252][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[2024-06-15 16:33:38.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.264][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[2024-06-15 16:33:38.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.276][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[2024-06-15 16:33:38.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.287][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[2024-06-15 16:33:38.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:38.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.299][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[2024-06-15 16:33:38.306][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2024-06-15 16:33:38.335][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2024-06-15 16:33:38.338][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:38.340][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2024-06-15 16:33:38.342][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:38.344][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:38.346][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:38.348][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2024-06-15 16:33:38.350][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:38.352][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:38.354][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2024-06-15 16:33:38.355][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:38.357][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:38.359][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2024-06-15 16:33:38.361][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2024-06-15 16:33:38.363][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2024-06-15 16:33:38.365][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:38.366][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:38.368][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-15 16:33:38.370][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:38.372][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:38.373][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:38.375][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:38.377][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:38.378][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:38.380][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-06-15 16:33:38.380][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-06-15 16:33:38.380][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2024-06-15 16:33:38.380][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2024-06-15 16:33:38.382][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:38.384][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:38.385][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:38.387][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:38.396][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2024-06-15 16:33:38.473][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2024-06-15 16:33:38.476][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2024-06-15 16:33:38.482][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2024-06-15 16:33:38.489][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2024-06-15 16:33:38.495][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-15 16:33:38.498][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-15 16:33:38.501][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-06-15 16:33:38.503][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-06-15 16:33:38.506][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-06-15 16:33:38.508][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2024-06-15 16:33:38.524][biodb::testThat]
biodb.INFO [2024-06-15 16:33:38.526][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-06-15 16:33:38.528][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:38.530][biodb::testThat]
biodb.TRACE[2024-06-15 16:33:38.551][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2024-06-15 16:33:38.554][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2024-06-15 16:33:38.559][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2024-06-15 16:33:38.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-15 16:33:38.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:38.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:38.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:38.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:38.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:38.614][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[2024-06-15 16:33:38.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.684][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:38.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:38.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.728][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:38.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:38.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:38.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:38.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:38.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:38.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:38.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:38.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.759][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:38.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:38.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.765][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:38.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:38.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:38.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:38.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:38.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:38.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.783][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:38.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.809][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:38.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:38.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-15 16:33:38.880][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2024-06-15 16:33:38.885][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:38.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:38.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.890][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:38.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:38.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.895][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:38.900][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:38.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:38.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:38.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.264][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.337][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.345][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.352][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.407][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.409][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.410][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.412][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.453][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.460][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.462][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.464][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.466][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.507][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.508][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.510][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.511][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.552][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.554][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.556][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.558][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.596][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.600][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.621][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.623][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.624][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.625][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.634][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.637][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.640][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.648][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.651][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.652][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.664][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.671][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.674][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.676][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.677][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.722][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2024-06-15 16:33:39.772][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2024-06-15 16:33:39.775][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2024-06-15 16:33:39.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-15 16:33:39.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:39.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:39.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:39.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:39.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:39.796][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[2024-06-15 16:33:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.852][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:39.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:39.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.858][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:39.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:39.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.869][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:39.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:39.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:39.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.909][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.919][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:39.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:39.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:39.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:39.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:39.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.956][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.963][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.977][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:39.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:39.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:39.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:39.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-15 16:33:40.032][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2024-06-15 16:33:40.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:40.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:40.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.083][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:40.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:40.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.092][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:40.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:40.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:40.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.127][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.181][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.187][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.244][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.248][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.267][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.285][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.294][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.303][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.305][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.307][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.309][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.311][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.334][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.349][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.357][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.359][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.360][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.362][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.363][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.385][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.395][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.398][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.430][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.432][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.434][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.464][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.476][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.477][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.478][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.495][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.518][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.519][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.520][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.538][ef$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.539][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.540][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.541][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.549][ef$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.550][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.552][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.553][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.560][ef$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.562][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.564][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.575][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.576][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.583][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.585][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.586][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.587][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.594][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.596][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.597][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.598][ef$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.606][ef$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.608][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.609][ef$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.610][ef$get] fields variable is a list.
biodb.INFO [2024-06-15 16:33:40.625][biodb::testThat]
biodb.INFO [2024-06-15 16:33:40.627][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-06-15 16:33:40.628][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:40.630][biodb::testThat]
biodb.DEBUG[2024-06-15 16:33:40.633][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2024-06-15 16:33:40.640][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.DEBUG[2024-06-15 16:33:40.650][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.DEBUG[2024-06-15 16:33:40.652][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.TRACE[2024-06-15 16:33:40.655][cch$loadFileContent] Trying to load 2 files from cache: [2]: "749674, 750690".
biodb.TRACE[2024-06-15 16:33:40.657][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2024-06-15 16:33:40.693][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/749674.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/750690.sdf".
biodb.DEBUG[2024-06-15 16:33:40.696][conn$getEntryContent] 2 NCI CACTUS entry content(s) loaded from cache.
biodb.DEBUG[2024-06-15 16:33:40.698][self$createEntryFromContent] Creating NCI CACTUS entries from 2 content(s).
biodb.DEBUG[2024-06-15 16:33:40.701][self$createEntryFromContent] Parsing 2 NCI CACTUS entries.
biodb.DEBUG[2024-06-15 16:33:40.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-15 16:33:40.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:40.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:40.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:40.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:40.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:40.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-15 16:33:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.749][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.757][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.778][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:40.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.802][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.807][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-15 16:33:40.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-06-15 16:33:40.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:40.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:40.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:40.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:40.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:40.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-06-15 16:33:40.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:40.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:40.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.891][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.898][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2024-06-15 16:33:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.906][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.913][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-06-15 16:33:40.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-06-15 16:33:40.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-06-15 16:33:40.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.936][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-06-15 16:33:40.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-06-15 16:33:40.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:40.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:40.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:40.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:40.999][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-06-15 16:33:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-06-15 16:33:41.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:41.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:41.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-06-15 16:33:41.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-06-15 16:33:41.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.025][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:41.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:41.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.041][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:41.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.056][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:41.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2024-06-15 16:33:41.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-06-15 16:33:41.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-06-15 16:33:41.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-06-15 16:33:41.136][self$createEntryFromContent] Accession numbers: 749674, 750690.
biodb.TRACE[2024-06-15 16:33:41.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-15 16:33:41.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-15 16:33:41.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-15 16:33:41.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-15 16:33:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-15 16:33:41.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-15 16:33:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-06-15 16:33:41.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-06-15 16:33:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-06-15 16:33:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-06-15 16:33:41.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-06-15 16:33:41.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-06-15 16:33:41.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-15 16:33:41.213][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.214][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-06-15 16:33:41.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.217][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.227][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.228][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-06-15 16:33:41.229][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.230][biodb::testThat]
biodb.WARN [2024-06-15 16:33:41.249][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2024-06-15 16:33:41.274][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2024-06-15 16:33:41.287][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.289][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-06-15 16:33:41.290][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.292][biodb::testThat]
biodb.TRACE[2024-06-15 16:33:41.319][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.324][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:41.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:41.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.334][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:41.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.391][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.399][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-06-15 16:33:41.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.406][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:41.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-06-15 16:33:41.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-06-15 16:33:41.414][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:41.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-06-15 16:33:41.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-06-15 16:33:41.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-06-15 16:33:41.429][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.430][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-06-15 16:33:41.432][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.434][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.450][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.453][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-06-15 16:33:41.455][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.457][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.483][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.485][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-06-15 16:33:41.487][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.489][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.504][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.506][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-06-15 16:33:41.508][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-06-15 16:33:41.510][biodb::testThat]
biodb.INFO [2024-06-15 16:33:41.524][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-15 16:33:41.526][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2024-06-15 16:33:41.528][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2024-06-15 16:33:41.530][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-15 16:33:41.532][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:41.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:41.535][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:41.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:41.538][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.540][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.INFO [2024-06-15 16:33:41.557][biodb::testContext]
biodb.INFO [2024-06-15 16:33:41.559][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-15 16:33:41.561][biodb::testContext] Test context - Example long tests
biodb.INFO [2024-06-15 16:33:41.562][biodb::testContext] ********************************************************************************
biodb.INFO [2024-06-15 16:33:41.564][biodb::testContext]
biodb.INFO [2024-06-15 16:33:41.569][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-06-15 16:33:41.573][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-06-15 16:33:41.581][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-15 16:33:41.583][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-06-15 16:33:41.585][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-06-15 16:33:41.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.591][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-06-15 16:33:41.593][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-06-15 16:33:41.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.598][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[2024-06-15 16:33:41.600][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-06-15 16:33:41.602][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-06-15 16:33:41.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.607][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-06-15 16:33:41.608][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-06-15 16:33:41.610][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-06-15 16:33:41.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.615][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[2024-06-15 16:33:41.617][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-06-15 16:33:41.619][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-06-15 16:33:41.621][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-06-15 16:33:41.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.628][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-06-15 16:33:41.630][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-06-15 16:33:41.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.635][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[2024-06-15 16:33:41.637][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-06-15 16:33:41.639][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-06-15 16:33:41.641][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-06-15 16:33:41.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.648][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-06-15 16:33:41.650][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-06-15 16:33:41.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.655][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[2024-06-15 16:33:41.657][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-06-15 16:33:41.658][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-06-15 16:33:41.660][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-06-15 16:33:41.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.666][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-06-15 16:33:41.668][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-06-15 16:33:41.670][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-06-15 16:33:41.672][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-06-15 16:33:41.674][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-06-15 16:33:41.676][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-06-15 16:33:41.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.681][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[2024-06-15 16:33:41.683][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-06-15 16:33:41.685][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-06-15 16:33:41.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.692][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-06-15 16:33:41.694][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-06-15 16:33:41.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.701][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[2024-06-15 16:33:41.704][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-06-15 16:33:41.706][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-06-15 16:33:41.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.714][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-06-15 16:33:41.716][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-06-15 16:33:41.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.722][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[2024-06-15 16:33:41.724][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-06-15 16:33:41.726][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-06-15 16:33:41.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.731][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-06-15 16:33:41.733][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-06-15 16:33:41.736][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-06-15 16:33:41.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.747][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[2024-06-15 16:33:41.749][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-06-15 16:33:41.751][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-06-15 16:33:41.753][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-06-15 16:33:41.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-06-15 16:33:41.761][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-06-15 16:33:41.764][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.766][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-06-15 16:33:41.769][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:41.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.774][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.776][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.778][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-15 16:33:41.779][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:41.781][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.782][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-06-15 16:33:41.783][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:41.784][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.786][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.787][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-15 16:33:41.787][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-15 16:33:41.787][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-15 16:33:41.787][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-15 16:33:41.787][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-15 16:33:41.789][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:41.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.791][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.793][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:41.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.796][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.798][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.800][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:41.803][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:41.805][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.806][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.809][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-06-15 16:33:41.812][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.814][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-06-15 16:33:41.815][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.817][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:41.819][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.821][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.822][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.824][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.825][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-15 16:33:41.826][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:41.828][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.830][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-06-15 16:33:41.831][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:41.833][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.835][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.837][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-06-15 16:33:41.837][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-06-15 16:33:41.837][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-06-15 16:33:41.837][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-06-15 16:33:41.837][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-06-15 16:33:41.839][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:41.841][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.842][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.844][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:41.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.849][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.851][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.853][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:41.854][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:41.856][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.858][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.861][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-06-15 16:33:41.864][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.867][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-06-15 16:33:41.869][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.871][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:41.873][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.875][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.877][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.879][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.882][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-06-15 16:33:41.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:41.886][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.888][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-06-15 16:33:41.890][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:41.892][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.894][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.897][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.899][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:41.901][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.903][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.905][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:41.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.913][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.915][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:41.917][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:41.919][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.921][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.924][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-06-15 16:33:41.928][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.930][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-06-15 16:33:41.932][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.934][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:41.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.939][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.941][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.943][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.945][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-06-15 16:33:41.947][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:41.950][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.952][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-06-15 16:33:41.954][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:41.956][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.959][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:41.961][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.963][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-06-15 16:33:41.965][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.967][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.969][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:41.971][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:41.973][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:41.975][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:41.977][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.980][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:41.982][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:41.984][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:41.986][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:41.989][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-15 16:33:41.991][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:41.992][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[2024-06-15 16:33:41.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:41.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.012][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[2024-06-15 16:33:42.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.022][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[2024-06-15 16:33:42.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.032][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[2024-06-15 16:33:42.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.042][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[2024-06-15 16:33:42.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.053][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[2024-06-15 16:33:42.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.061][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[2024-06-15 16:33:42.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.069][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[2024-06-15 16:33:42.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.078][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[2024-06-15 16:33:42.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.086][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[2024-06-15 16:33:42.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.094][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[2024-06-15 16:33:42.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.104][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[2024-06-15 16:33:42.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.112][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[2024-06-15 16:33:42.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.120][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[2024-06-15 16:33:42.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.129][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[2024-06-15 16:33:42.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.135][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[2024-06-15 16:33:42.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.141][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[2024-06-15 16:33:42.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.147][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[2024-06-15 16:33:42.149][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-06-15 16:33:42.151][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-06-15 16:33:42.153][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-06-15 16:33:42.156][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-06-15 16:33:42.160][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-06-15 16:33:42.163][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-06-15 16:33:42.166][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-06-15 16:33:42.169][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-06-15 16:33:42.171][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-06-15 16:33:42.174][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-06-15 16:33:42.176][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-06-15 16:33:42.179][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-06-15 16:33:42.182][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-06-15 16:33:42.184][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-06-15 16:33:42.186][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-06-15 16:33:42.188][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-06-15 16:33:42.189][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-06-15 16:33:42.191][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-06-15 16:33:42.193][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-06-15 16:33:42.195][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-06-15 16:33:42.196][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-06-15 16:33:42.198][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-06-15 16:33:42.200][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-06-15 16:33:42.202][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-06-15 16:33:42.205][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-06-15 16:33:42.208][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-06-15 16:33:42.210][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-06-15 16:33:42.213][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-06-15 16:33:42.216][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-06-15 16:33:42.218][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-06-15 16:33:42.221][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-06-15 16:33:42.224][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-06-15 16:33:42.227][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-06-15 16:33:42.229][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-06-15 16:33:42.232][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-06-15 16:33:42.234][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-06-15 16:33:42.237][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-06-15 16:33:42.240][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-06-15 16:33:42.242][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-06-15 16:33:42.254][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-06-15 16:33:42.257][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-06-15 16:33:42.260][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-06-15 16:33:42.263][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-06-15 16:33:42.266][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-06-15 16:33:42.269][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-06-15 16:33:42.272][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-06-15 16:33:42.274][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-06-15 16:33:42.277][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-06-15 16:33:42.280][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-06-15 16:33:42.283][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-06-15 16:33:42.286][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-06-15 16:33:42.288][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-06-15 16:33:42.291][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-06-15 16:33:42.294][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-06-15 16:33:42.297][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-06-15 16:33:42.299][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-06-15 16:33:42.302][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-06-15 16:33:42.305][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-06-15 16:33:42.308][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-06-15 16:33:42.310][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-06-15 16:33:42.313][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-06-15 16:33:42.316][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-06-15 16:33:42.318][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-06-15 16:33:42.321][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-06-15 16:33:42.324][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-06-15 16:33:42.327][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-06-15 16:33:42.329][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-06-15 16:33:42.332][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-06-15 16:33:42.335][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-06-15 16:33:42.338][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-06-15 16:33:42.340][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-06-15 16:33:42.343][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-06-15 16:33:42.346][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-06-15 16:33:42.348][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-06-15 16:33:42.351][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-06-15 16:33:42.354][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-06-15 16:33:42.357][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-06-15 16:33:42.359][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-06-15 16:33:42.362][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-06-15 16:33:42.365][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-06-15 16:33:42.366][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-06-15 16:33:42.368][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-06-15 16:33:42.370][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-06-15 16:33:42.371][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-06-15 16:33:42.375][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-06-15 16:33:42.376][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-06-15 16:33:42.377][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.379][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.381][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[2024-06-15 16:33:42.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.389][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[2024-06-15 16:33:42.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.397][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[2024-06-15 16:33:42.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.405][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[2024-06-15 16:33:42.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.413][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[2024-06-15 16:33:42.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.421][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[2024-06-15 16:33:42.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.428][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[2024-06-15 16:33:42.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.436][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[2024-06-15 16:33:42.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.448][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[2024-06-15 16:33:42.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.460][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[2024-06-15 16:33:42.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.474][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[2024-06-15 16:33:42.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.482][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[2024-06-15 16:33:42.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.490][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[2024-06-15 16:33:42.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.498][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[2024-06-15 16:33:42.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.506][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[2024-06-15 16:33:42.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.514][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[2024-06-15 16:33:42.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.522][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[2024-06-15 16:33:42.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-06-15 16:33:42.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.530][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[2024-06-15 16:33:42.534][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2024-06-15 16:33:42.536][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2024-06-15 16:33:42.538][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:42.540][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2024-06-15 16:33:42.541][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:42.542][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-06-15 16:33:42.544][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:42.545][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2024-06-15 16:33:42.546][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:42.547][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-06-15 16:33:42.549][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2024-06-15 16:33:42.550][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-06-15 16:33:42.551][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:42.553][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2024-06-15 16:33:42.554][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2024-06-15 16:33:42.555][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2024-06-15 16:33:42.557][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-06-15 16:33:42.558][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:42.559][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-06-15 16:33:42.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:42.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:42.563][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-06-15 16:33:42.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-06-15 16:33:42.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-06-15 16:33:42.568][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-06-15 16:33:42.570][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-06-15 16:33:42.570][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2024-06-15 16:33:42.570][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2024-06-15 16:33:42.570][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2024-06-15 16:33:42.571][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-06-15 16:33:42.573][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-06-15 16:33:42.575][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-06-15 16:33:42.576][self$setPropertyValue]
biodb.DEBUG[2024-06-15 16:33:42.579][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2024-06-15 16:33:42.584][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2024-06-15 16:33:42.585][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2024-06-15 16:33:42.588][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2024-06-15 16:33:42.590][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2024-06-15 16:33:42.592][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-15 16:33:42.594][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-06-15 16:33:42.597][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-06-15 16:33:42.599][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-06-15 16:33:42.601][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2024-06-15 16:33:42.603][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2024-06-15 16:33:42.605][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-06-15 16:33:42.607][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2024-06-15 16:33:42.609][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2024-06-15 16:33:42.610][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-06-15 16:33:42.612][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-06-15 16:33:42.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-06-15 16:33:42.615][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-06-15 16:33:42.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-06-15 16:33:42.618][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-06-15 16:33:42.620][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 0 | WARN 0 | SKIP 0 | PASS 92 ]
> 
> proc.time()
   user  system elapsed 
   7.21   13.92   21.25

'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 biodbNci_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck'
* using R version 4.4.0 RC (2024-04-16 r86468 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* 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 'biodbNci/DESCRIPTION' ... OK
* this is package 'biodbNci' version '1.9.0'
* 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 'biodbNci' can be installed ... OK
* used C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
* 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* 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'
 OK
* DONE

Status: OK

Installation output

biodbNci.Rcheck/00install.out

* installing *source* package 'biodbNci' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
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 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 extractEntries.cpp -o extractEntries.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-example.cpp -o test-100-example.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 biodbNci.dll tmp.def RcppExports.o extractEntries.o test-100-example.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/biodbNci.Rcheck/00LOCK-biodbNci/00new/biodbNci/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** 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 (biodbNci)