Back to Long Tests report for BioC 3.21

This page was generated on 2025-04-26 23:55 -0400 (Sat, 26 Apr 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4832
palomino7Windows Server 2022 Datacenterx644.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" 4574
merida1macOS 12.7.5 Montereyx86_644.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" 4599
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 9/30HostnameOS / ArchCHECK
biodbNci 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-04-26 09:55 -0400 (Sat, 26 Apr 2025)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: RELEASE_3_21
git_last_commit: a398ae4
git_last_commit_date: 2025-04-15 12:47:37 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK  
palomino7Windows Server 2022 Datacenter / x64  ERROR  
merida1macOS 12.7.5 Monterey / x86_64  OK  

CHECK results for biodbNci on palomino7

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: 1.12.0
Command: E:\biocbuild\bbs-3.21-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_1.12.0.tar.gz
StartedAt: 2025-04-26 16:04:37 -0400 (Sat, 26 Apr 2025)
EndedAt: 2025-04-26 16:06:00 -0400 (Sat, 26 Apr 2025)
EllapsedTime: 82.3 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbNci.Rcheck
Warnings: NA

Tests output

biodbNci.Rcheck/tests/testthat.Rout.fail


R version 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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Type 'license()' or 'licence()' for distribution details.

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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
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> # 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 [2025-04-26 16:05:55.867][biodb::testContext]
biodb.INFO [2025-04-26 16:05:55.870][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-26 16:05:55.871][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-04-26 16:05:55.872][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-26 16:05:55.873][biodb::testContext]
biodb.INFO [2025-04-26 16:05:55.880][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-04-26 16:05:55.882][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-26 16:05:55.890][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-26 16:05:55.891][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-26 16:05:55.893][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-26 16:05:55.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.897][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-26 16:05:55.913][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-26 16:05:55.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.917][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-26 16:05:55.919][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-26 16:05:55.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.923][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-26 16:05:55.924][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-26 16:05:55.925][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-26 16:05:55.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.930][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-26 16:05:55.931][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-26 16:05:55.932][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-26 16:05:55.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.936][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-26 16:05:55.937][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-26 16:05:55.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.942][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-26 16:05:55.943][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-26 16:05:55.944][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-26 16:05:55.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.948][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-26 16:05:55.950][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-26 16:05:55.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.954][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-26 16:05:55.955][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-26 16:05:55.956][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-26 16:05:55.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.960][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-26 16:05:55.962][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-26 16:05:55.963][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-26 16:05:55.964][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-26 16:05:55.965][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-26 16:05:55.966][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-26 16:05:55.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.971][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-26 16:05:55.972][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-26 16:05:55.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.976][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-26 16:05:55.977][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-26 16:05:55.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.981][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-26 16:05:55.983][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-26 16:05:55.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.987][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-26 16:05:55.988][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-26 16:05:55.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.992][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-26 16:05:55.994][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-26 16:05:55.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:55.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:55.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:55.998][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-26 16:05:55.999][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-26 16:05:56.002][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-26 16:05:56.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.007][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-26 16:05:56.008][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-26 16:05:56.009][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-26 16:05:56.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.015][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-26 16:05:56.043][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.063][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-26 16:05:56.065][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.066][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:56.067][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.068][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.069][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.071][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.072][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-26 16:05:56.073][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:56.074][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.075][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-26 16:05:56.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:56.078][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.079][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.080][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-26 16:05:56.080][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-26 16:05:56.080][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-26 16:05:56.080][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-26 16:05:56.080][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-26 16:05:56.081][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:56.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.084][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.085][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:56.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.089][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.090][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:56.091][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:56.092][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.094][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.095][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-26 16:05:56.097][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.098][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-26 16:05:56.099][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.100][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:56.102][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.103][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.104][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.105][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.107][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-26 16:05:56.108][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:56.109][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.110][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-26 16:05:56.111][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:56.112][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.114][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.115][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-26 16:05:56.115][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-26 16:05:56.115][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-26 16:05:56.115][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-26 16:05:56.115][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-26 16:05:56.116][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:56.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.118][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.119][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:56.120][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.122][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.123][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.124][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.125][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:56.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:56.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.128][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.130][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-26 16:05:56.132][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.133][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-26 16:05:56.134][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.135][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:56.136][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.137][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.139][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.140][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.141][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-26 16:05:56.142][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:56.143][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.145][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-26 16:05:56.146][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:56.147][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.148][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.149][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.150][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:56.152][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.153][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.154][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:56.155][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.156][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.157][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.158][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.160][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:56.161][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:56.162][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.163][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.164][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-26 16:05:56.166][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.167][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-26 16:05:56.168][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.170][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:56.171][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.172][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.173][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.174][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.176][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-26 16:05:56.177][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:56.178][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.179][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-26 16:05:56.180][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:56.181][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.183][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.184][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.185][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:56.186][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.187][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.188][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:56.190][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.192][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.193][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.194][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:56.195][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:56.196][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.197][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.201][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-26 16:05:56.202][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.203][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[2025-04-26 16:05:56.204][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.240][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[2025-04-26 16:05:56.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.256][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[2025-04-26 16:05:56.257][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.300][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-26 16:05:56.304][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-26 16:05:56.305][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-26 16:05:56.307][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-26 16:05:56.308][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-26 16:05:56.310][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-26 16:05:56.312][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-26 16:05:56.313][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-26 16:05:56.315][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-26 16:05:56.316][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-26 16:05:56.318][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-26 16:05:56.319][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-26 16:05:56.321][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-26 16:05:56.322][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-26 16:05:56.324][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-26 16:05:56.325][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-26 16:05:56.327][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-26 16:05:56.328][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-26 16:05:56.330][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-26 16:05:56.331][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-26 16:05:56.333][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-26 16:05:56.335][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-26 16:05:56.336][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-26 16:05:56.338][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-26 16:05:56.339][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-26 16:05:56.341][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-26 16:05:56.342][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-26 16:05:56.344][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-26 16:05:56.345][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-26 16:05:56.347][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-26 16:05:56.348][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-26 16:05:56.350][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-26 16:05:56.351][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-26 16:05:56.353][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-26 16:05:56.354][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-26 16:05:56.356][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-26 16:05:56.357][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-26 16:05:56.359][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-26 16:05:56.360][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-26 16:05:56.362][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-26 16:05:56.363][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-26 16:05:56.365][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-26 16:05:56.366][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-26 16:05:56.368][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-26 16:05:56.369][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-26 16:05:56.371][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-26 16:05:56.373][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-26 16:05:56.374][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-26 16:05:56.376][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-26 16:05:56.377][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-26 16:05:56.379][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-26 16:05:56.380][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-26 16:05:56.382][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-26 16:05:56.383][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-26 16:05:56.385][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-26 16:05:56.386][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-26 16:05:56.388][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-26 16:05:56.389][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-26 16:05:56.391][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-26 16:05:56.392][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-26 16:05:56.394][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-26 16:05:56.395][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-26 16:05:56.397][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-26 16:05:56.399][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-26 16:05:56.400][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-26 16:05:56.402][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-26 16:05:56.403][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-26 16:05:56.405][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-26 16:05:56.406][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-26 16:05:56.408][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-26 16:05:56.409][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-26 16:05:56.411][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-26 16:05:56.412][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-26 16:05:56.414][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-26 16:05:56.415][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-26 16:05:56.417][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-26 16:05:56.418][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-26 16:05:56.420][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-26 16:05:56.421][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-26 16:05:56.423][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-26 16:05:56.424][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-26 16:05:56.426][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-26 16:05:56.427][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-26 16:05:56.450][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-26 16:05:56.453][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-04-26 16:05:56.456][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-26 16:05:56.457][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.459][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:56.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:56.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.615][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[2025-04-26 16:05:56.618][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-04-26 16:05:56.627][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-04-26 16:05:56.629][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.630][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-04-26 16:05:56.631][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.632][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:56.634][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.635][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-04-26 16:05:56.636][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.637][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.638][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-04-26 16:05:56.639][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:56.640][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.642][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-04-26 16:05:56.643][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-04-26 16:05:56.644][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-04-26 16:05:56.645][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:56.646][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.648][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-26 16:05:56.649][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.651][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:56.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:56.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:56.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:56.655][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-26 16:05:56.655][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-26 16:05:56.655][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-04-26 16:05:56.655][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-04-26 16:05:56.656][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:56.657][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:56.659][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:56.660][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:56.665][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-04-26 16:05:56.686][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-04-26 16:05:56.687][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-04-26 16:05:56.691][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-04-26 16:05:56.695][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-04-26 16:05:56.698][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-26 16:05:56.700][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-26 16:05:56.701][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-26 16:05:56.703][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-26 16:05:56.705][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-26 16:05:56.706][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-04-26 16:05:56.716][biodb::testThat]
biodb.INFO [2025-04-26 16:05:56.717][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-04-26 16:05:56.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:56.719][biodb::testThat]
biodb.TRACE[2025-04-26 16:05:56.724][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2025-04-26 16:05:56.726][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-04-26 16:05:56.737][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-04-26 16:05:56.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-26 16:05:56.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:56.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:56.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:56.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:56.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:56.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-26 16:05:56.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.801][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:56.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:56.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:56.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:56.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:56.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:56.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:56.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:56.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:56.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:56.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:56.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:56.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:56.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:56.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:56.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:56.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.862][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:56.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:56.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.867][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:56.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:56.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.876][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:56.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:56.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:56.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:56.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-26 16:05:56.943][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2025-04-26 16:05:56.946][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-26 16:05:56.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-26 16:05:56.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-26 16:05:56.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-26 16:05:56.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.956][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-26 16:05:56.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-26 16:05:56.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:56.960][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-26 16:05:56.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-26 16:05:56.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:56.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.018][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.060][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.064][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.069][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.102][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.104][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.106][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.127][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.132][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.137][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.138][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.140][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.170][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.174][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.204][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.205][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.207][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.223][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.238][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.239][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.241][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.257][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.258][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.261][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.272][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.276][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.282][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.284][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.286][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.293][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.294][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.297][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.304][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.305][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.307][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.325][loadFileContents] Loaded 1 files from cache: [1]: "E:/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2025-04-26 16:05:57.355][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-04-26 16:05:57.357][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-04-26 16:05:57.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-04-26 16:05:57.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:57.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:57.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:57.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:57.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:57.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-04-26 16:05:57.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.405][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.414][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.424][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.439][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.454][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.493][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.498][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.507][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-04-26 16:05:57.541][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2025-04-26 16:05:57.558][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-26 16:05:57.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-26 16:05:57.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.563][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-04-26 16:05:57.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-04-26 16:05:57.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.568][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-04-26 16:05:57.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-04-26 16:05:57.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.577][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-04-26 16:05:57.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-04-26 16:05:57.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.611][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.652][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.657][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.662][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-04-26 16:05:57.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.698][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.699][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.702][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.718][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.723][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.727][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.732][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.733][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.735][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.737][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.756][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.761][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.771][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.772][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.774][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.790][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.795][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.800][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.805][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.806][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.808][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.809][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.838][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.839][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.842][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.862][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.867][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.871][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.872][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.875][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.895][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.905][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.906][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.908][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.909][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.924][ef$get] Asked field names are: accession.
biodb.TRACE[2025-04-26 16:05:57.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-04-26 16:05:57.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.928][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.935][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.936][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-04-26 16:05:57.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.938][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.945][ef$get] Asked field names are: formula.
biodb.TRACE[2025-04-26 16:05:57.946][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-04-26 16:05:57.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.957][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.964][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-04-26 16:05:57.965][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-04-26 16:05:57.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.968][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.975][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.976][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-04-26 16:05:57.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.978][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.985][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-04-26 16:05:57.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.989][ef$get] fields variable is a list.
biodb.TRACE[2025-04-26 16:05:57.995][ef$get] Asked field names are: name.
biodb.TRACE[2025-04-26 16:05:57.997][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-04-26 16:05:57.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-04-26 16:05:57.999][ef$get] fields variable is a list.
biodb.INFO [2025-04-26 16:05:58.011][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.013][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-04-26 16:05:58.014][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.015][biodb::testThat]
biodb.DEBUG[2025-04-26 16:05:58.018][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2025-04-26 16:05:58.024][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.DEBUG[2025-04-26 16:05:58.030][self$isDownloaded] Database nci.cactus has not yet been downloaded.
biodb.INFO [2025-04-26 16:05:58.031][self$download] Downloading whole database of nci.cactus.
biodb.INFO [2025-04-26 16:05:58.032][private$doDownload] Downloading NCI CACTUS database at "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz" ...
biodb.DEBUG[2025-04-26 16:05:58.035][sched$downloadFile] Downloading file "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
trying URL 'https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz'
Content type 'application/x-gzip' length 206737123 bytes (197.2 MB)
===
downloaded 15.6 MB

biodb.INFO [2025-04-26 16:05:58.586][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.587][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-04-26 16:05:58.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.591][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.605][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.607][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-04-26 16:05:58.609][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.611][biodb::testThat]
biodb.WARN [2025-04-26 16:05:58.629][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2025-04-26 16:05:58.652][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2025-04-26 16:05:58.664][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.666][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-04-26 16:05:58.667][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.668][biodb::testThat]
biodb.DEBUG[2025-04-26 16:05:58.684][private$loadEntries] Creating entries from ids [1]: "749674".
biodb.DEBUG[2025-04-26 16:05:58.738][conn$getEntryContent] Get NCI CACTUS entry content(s) for 1 id(s)...
biodb.DEBUG[2025-04-26 16:05:58.741][self$isDownloaded] Database nci.cactus has not yet been downloaded.
biodb.INFO [2025-04-26 16:05:58.743][self$download] Downloading whole database of nci.cactus.
biodb.INFO [2025-04-26 16:05:58.745][private$doDownload] Downloading NCI CACTUS database at "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz" ...
biodb.DEBUG[2025-04-26 16:05:58.765][sched$downloadFile] Downloading file "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
trying URL 'https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz'
Content type 'application/x-gzip' length 206737123 bytes (197.2 MB)

downloaded 0 bytes

biodb.INFO [2025-04-26 16:05:58.867][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.868][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-04-26 16:05:58.870][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.871][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.882][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.883][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-04-26 16:05:58.884][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.885][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.896][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.897][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-04-26 16:05:58.899][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.900][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.909][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.911][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-04-26 16:05:58.912][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-04-26 16:05:58.913][biodb::testThat]
biodb.INFO [2025-04-26 16:05:58.922][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-26 16:05:58.923][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-04-26 16:05:58.925][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-04-26 16:05:58.926][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-26 16:05:58.927][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:58.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:58.929][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:58.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:58.931][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.932][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 [2025-04-26 16:05:58.943][biodb::testContext]
biodb.INFO [2025-04-26 16:05:58.944][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-26 16:05:58.945][biodb::testContext] Test context - Example long tests
biodb.INFO [2025-04-26 16:05:58.947][biodb::testContext] ********************************************************************************
biodb.INFO [2025-04-26 16:05:58.948][biodb::testContext]
biodb.INFO [2025-04-26 16:05:58.951][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-04-26 16:05:58.953][self$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-04-26 16:05:58.958][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-26 16:05:58.959][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-04-26 16:05:58.961][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-04-26 16:05:58.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:58.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:58.965][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-04-26 16:05:58.966][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-04-26 16:05:58.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:58.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:58.970][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-04-26 16:05:58.972][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-04-26 16:05:58.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:58.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:58.976][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-04-26 16:05:58.977][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-04-26 16:05:58.979][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-04-26 16:05:58.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:58.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:58.983][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-04-26 16:05:58.984][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-04-26 16:05:58.985][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-04-26 16:05:58.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:58.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:58.990][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-04-26 16:05:58.991][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-04-26 16:05:58.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:58.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:58.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:58.995][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-04-26 16:05:59.002][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-04-26 16:05:59.003][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-04-26 16:05:59.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.007][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-04-26 16:05:59.009][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-04-26 16:05:59.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.012][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[2025-04-26 16:05:59.013][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-04-26 16:05:59.014][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-04-26 16:05:59.016][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-04-26 16:05:59.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.020][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-04-26 16:05:59.021][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-04-26 16:05:59.022][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-04-26 16:05:59.024][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-04-26 16:05:59.025][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-04-26 16:05:59.026][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-04-26 16:05:59.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.030][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-04-26 16:05:59.032][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-04-26 16:05:59.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.036][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-04-26 16:05:59.037][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-04-26 16:05:59.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.042][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-04-26 16:05:59.043][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-04-26 16:05:59.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.047][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-04-26 16:05:59.048][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-04-26 16:05:59.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.053][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-04-26 16:05:59.054][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-04-26 16:05:59.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.058][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-04-26 16:05:59.060][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-04-26 16:05:59.063][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-04-26 16:05:59.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.067][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-04-26 16:05:59.068][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-04-26 16:05:59.070][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-04-26 16:05:59.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.074][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-04-26 16:05:59.076][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.078][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-04-26 16:05:59.079][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.080][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:59.081][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.082][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.084][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.085][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.086][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-26 16:05:59.087][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:59.088][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.090][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-04-26 16:05:59.091][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:59.092][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.093][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.094][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-26 16:05:59.094][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-26 16:05:59.094][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-26 16:05:59.094][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-26 16:05:59.094][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-26 16:05:59.096][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:59.097][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.098][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.099][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:59.100][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.101][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.103][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.104][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.105][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:59.106][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:59.107][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.108][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.110][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-04-26 16:05:59.112][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.113][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-04-26 16:05:59.114][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.115][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:59.117][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.118][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.119][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.120][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.121][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-26 16:05:59.123][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:59.124][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.125][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-04-26 16:05:59.126][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:59.128][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.129][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.130][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-04-26 16:05:59.130][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-04-26 16:05:59.130][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-04-26 16:05:59.130][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-04-26 16:05:59.130][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-04-26 16:05:59.131][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:59.132][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.134][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.135][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:59.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.138][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.139][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.141][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:59.142][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:59.143][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.144][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.146][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-04-26 16:05:59.147][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.149][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-04-26 16:05:59.150][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.151][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:59.152][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.154][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.155][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.156][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.157][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-04-26 16:05:59.158][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:59.160][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.161][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-04-26 16:05:59.167][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:59.168][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.170][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.171][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.172][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:59.173][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.174][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.175][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:59.177][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.178][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.179][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.180][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.181][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:59.182][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:59.183][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.185][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.186][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-04-26 16:05:59.188][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.189][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-04-26 16:05:59.191][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.192][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:59.193][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.194][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.195][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.197][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.198][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-04-26 16:05:59.199][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:59.200][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.201][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-04-26 16:05:59.203][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:59.204][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.205][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.206][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.207][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-04-26 16:05:59.209][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.210][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.211][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:59.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.214][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.215][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.217][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:59.218][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:59.219][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.220][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.222][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-26 16:05:59.223][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.225][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.240][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[2025-04-26 16:05:59.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.263][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.318][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-04-26 16:05:59.320][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-04-26 16:05:59.321][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-04-26 16:05:59.323][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-04-26 16:05:59.324][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-04-26 16:05:59.331][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-04-26 16:05:59.333][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-04-26 16:05:59.334][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-04-26 16:05:59.336][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-04-26 16:05:59.337][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-04-26 16:05:59.339][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-04-26 16:05:59.340][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-04-26 16:05:59.342][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-04-26 16:05:59.343][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-04-26 16:05:59.345][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-04-26 16:05:59.347][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-04-26 16:05:59.348][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-04-26 16:05:59.350][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-04-26 16:05:59.352][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-04-26 16:05:59.353][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-04-26 16:05:59.355][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-04-26 16:05:59.356][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-04-26 16:05:59.358][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-04-26 16:05:59.359][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-04-26 16:05:59.361][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-04-26 16:05:59.362][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-04-26 16:05:59.364][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-04-26 16:05:59.366][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-04-26 16:05:59.367][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-04-26 16:05:59.369][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-04-26 16:05:59.370][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-04-26 16:05:59.372][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-04-26 16:05:59.373][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-04-26 16:05:59.375][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-04-26 16:05:59.377][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-04-26 16:05:59.378][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-04-26 16:05:59.380][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-04-26 16:05:59.381][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-04-26 16:05:59.383][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-04-26 16:05:59.384][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-04-26 16:05:59.386][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-04-26 16:05:59.387][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-04-26 16:05:59.389][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-04-26 16:05:59.391][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-04-26 16:05:59.392][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-04-26 16:05:59.394][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-04-26 16:05:59.395][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-04-26 16:05:59.397][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-04-26 16:05:59.398][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-04-26 16:05:59.400][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-04-26 16:05:59.401][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-04-26 16:05:59.403][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-04-26 16:05:59.405][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-04-26 16:05:59.406][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-04-26 16:05:59.408][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-04-26 16:05:59.409][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-04-26 16:05:59.411][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-04-26 16:05:59.412][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-04-26 16:05:59.414][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-04-26 16:05:59.416][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-04-26 16:05:59.417][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-04-26 16:05:59.419][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-04-26 16:05:59.420][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-04-26 16:05:59.422][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-04-26 16:05:59.423][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-04-26 16:05:59.425][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-04-26 16:05:59.426][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-04-26 16:05:59.428][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-04-26 16:05:59.430][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-04-26 16:05:59.431][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-04-26 16:05:59.433][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-04-26 16:05:59.434][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-04-26 16:05:59.436][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-04-26 16:05:59.437][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-04-26 16:05:59.439][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-04-26 16:05:59.441][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-04-26 16:05:59.442][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-04-26 16:05:59.444][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-04-26 16:05:59.445][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-04-26 16:05:59.447][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-04-26 16:05:59.448][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-04-26 16:05:59.450][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-04-26 16:05:59.452][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-04-26 16:05:59.453][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-04-26 16:05:59.456][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-04-26 16:05:59.457][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-04-26 16:05:59.458][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.460][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.482][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[2025-04-26 16:05:59.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.490][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[2025-04-26 16:05:59.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.506][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[2025-04-26 16:05:59.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-04-26 16:05:59.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-04-26 16:05:59.599][biodb$loadDefinitions] Load definitions from file "E:/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-04-26 16:05:59.601][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-04-26 16:05:59.603][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.604][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-04-26 16:05:59.605][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.606][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-04-26 16:05:59.608][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.609][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-04-26 16:05:59.610][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.611][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.612][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-04-26 16:05:59.614][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-04-26 16:05:59.615][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.616][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-04-26 16:05:59.617][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-04-26 16:05:59.618][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-04-26 16:05:59.620][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-04-26 16:05:59.621][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.622][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-04-26 16:05:59.623][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.624][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.625][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-04-26 16:05:59.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-04-26 16:05:59.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-04-26 16:05:59.629][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-04-26 16:05:59.630][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-26 16:05:59.630][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-04-26 16:05:59.630][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-04-26 16:05:59.630][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-04-26 16:05:59.631][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-04-26 16:05:59.632][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-04-26 16:05:59.633][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-04-26 16:05:59.635][self$setPropertyValue]
biodb.DEBUG[2025-04-26 16:05:59.636][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-04-26 16:05:59.644][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-04-26 16:05:59.646][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-04-26 16:05:59.647][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-04-26 16:05:59.649][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-04-26 16:05:59.650][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-26 16:05:59.651][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-04-26 16:05:59.653][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-26 16:05:59.655][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-26 16:05:59.656][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-04-26 16:05:59.657][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-04-26 16:05:59.659][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-04-26 16:05:59.660][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-04-26 16:05:59.661][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-04-26 16:05:59.662][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-04-26 16:05:59.663][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-04-26 16:05:59.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-04-26 16:05:59.666][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-04-26 16:05:59.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-04-26 16:05:59.668][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-04-26 16:05:59.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 2 | WARN 4 | SKIP 0 | PASS 85 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:37:1'): RT unit is defined when there is an RT value. ──
Error in `utils::download.file(url = url, destfile = dest.file, mode = "wb", 
    method = "auto", cacheOK = FALSE, quiet = FALSE)`: download from 'https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz' failed
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<NcCctsCn>`, opt = `<named list>`)
 3.   └─conn$getBiodb()$getFactory()$getEntry(...)
 4.     └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 5.       └─conn$getEntryContent(ids)
 6.         └─self$download()
 7.           └─private$doDownload()
 8.             └─sched$downloadFile(url = gz.url, dest.file = tmpFile)
 9.               └─utils::download.file(...)
── Error ('test_long_100_generic.R:37:1'): We can load an entry from the database. ──
Error in `utils::download.file(url = url, destfile = dest.file, mode = "wb", 
    method = "auto", cacheOK = FALSE, quiet = FALSE)`: download from 'https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz' failed
Backtrace:
     ▆
  1. ├─base::do.call(fct, params)
  2. └─biodb (local) `<fn>`(conn = `<NcCctsCn>`, opt = `<named list>`)
  3.   └─opt$refEntries$getRealEntry(id)
  4.     └─self$getRealEntries(ids = id)
  5.       └─private$bdb$getFactory()$getEntry(...)
  6.         └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
  7.           └─conn$getEntryContent(ids)
  8.             └─self$download()
  9.               └─private$doDownload()
 10.                 └─sched$downloadFile(url = gz.url, dest.file = tmpFile)
 11.                   └─utils::download.file(...)

[ FAIL 2 | WARN 4 | SKIP 0 | PASS 85 ]
Error: Test failures
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-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_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck'
* using R version 4.5.0 RC (2025-04-04 r88126 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* 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 '1.12.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbNci' can be installed ... OK
* used C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
* 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 ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  NciCactusConn.Rd: BiodbConn
  NciCactusEntry.Rd: BiodbSdfEntry
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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'
 ERROR
Running the tests in 'longtests/testthat.R' failed.
Last 13 lines of output:
    1. ├─base::do.call(fct, params)
    2. └─biodb (local) `<fn>`(conn = `<NcCctsCn>`, opt = `<named list>`)
    3.   └─opt$refEntries$getRealEntry(id)
    4.     └─self$getRealEntries(ids = id)
    5.       └─private$bdb$getFactory()$getEntry(...)
    6.         └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
    7.           └─conn$getEntryContent(ids)
    8.             └─self$download()
    9.               └─private$doDownload()
   10.                 └─sched$downloadFile(url = gz.url, dest.file = tmpFile)
   11.                   └─utils::download.file(...)
  
  [ FAIL 2 | WARN 4 | SKIP 0 | PASS 85 ]
  Error: Test failures
  Execution halted
* DONE

Status: 1 ERROR, 1 NOTE
See
  'E:/biocbuild/bbs-3.21-bioc-longtests/meat/biodbNci.Rcheck/00check.log'
for details.

Installation output

biodbNci.Rcheck/00install.out

* installing *source* package 'biodbNci' ...
** this is package 'biodbNci' version '1.12.0'
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c extractEntries.cpp -o extractEntries.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG  -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/testthat/include'   -I"C:/rtools45/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:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-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)