Back to Long Tests report for BioC 3.22

This page was generated on 2025-09-27 23:55 -0400 (Sat, 27 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4832
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4620
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 6/29HostnameOS / ArchCHECK
biodbHmdb 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-09-27 09:55 -0400 (Sat, 27 Sep 2025)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: devel
git_last_commit: fa89c02
git_last_commit_date: 2025-07-24 10:45:35 -0400 (Thu, 24 Jul 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR  
lconwaymacOS 12.7.1 Monterey / x86_64  ERROR  

CHECK results for biodbHmdb on nebbiolo2

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

raw results


Summary

Package: biodbHmdb
Version: 1.15.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbHmdb_1.15.1.tar.gz
StartedAt: 2025-09-27 16:01:06 -0400 (Sat, 27 Sep 2025)
EndedAt: 2025-09-27 16:02:14 -0400 (Sat, 27 Sep 2025)
EllapsedTime: 68.0 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbHmdb.Rcheck
Warnings: NA

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout.fail


R version 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbHmdb)
Warning message:
In fun(libname, pkgname) :
  Package 'biodbHmdb' is deprecated and will be removed from Bioconductor
  version 3.23
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-09-27 16:02:11.326][biodb::testContext]
biodb.INFO [2025-09-27 16:02:11.328][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-27 16:02:11.328][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-09-27 16:02:11.329][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-27 16:02:11.330][biodb::testContext]
biodb.INFO [2025-09-27 16:02:11.336][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-09-27 16:02:11.338][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-27 16:02:11.345][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-27 16:02:11.346][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-27 16:02:11.347][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-27 16:02:11.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.350][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-27 16:02:11.368][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-27 16:02:11.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.371][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-27 16:02:11.372][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-27 16:02:11.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.384][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-27 16:02:11.384][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-27 16:02:11.385][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-27 16:02:11.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.389][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-27 16:02:11.390][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-27 16:02:11.391][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-27 16:02:11.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.394][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-27 16:02:11.395][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-27 16:02:11.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.398][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-27 16:02:11.399][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-27 16:02:11.400][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-27 16:02:11.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.404][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-27 16:02:11.405][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-27 16:02:11.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.408][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-27 16:02:11.409][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-27 16:02:11.410][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-27 16:02:11.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.413][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-27 16:02:11.414][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-27 16:02:11.415][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-27 16:02:11.416][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-27 16:02:11.417][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-27 16:02:11.418][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-27 16:02:11.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.421][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-27 16:02:11.422][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-27 16:02:11.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.425][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-27 16:02:11.426][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-27 16:02:11.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.430][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-27 16:02:11.431][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-27 16:02:11.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.434][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-27 16:02:11.435][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-27 16:02:11.436][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-27 16:02:11.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.439][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-27 16:02:11.440][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-27 16:02:11.445][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-27 16:02:11.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.448][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-27 16:02:11.449][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-27 16:02:11.450][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-27 16:02:11.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.455][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-27 16:02:11.486][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.500][self$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[2025-09-27 16:02:11.501][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.502][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-27 16:02:11.503][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.504][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.505][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.507][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-27 16:02:11.508][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-27 16:02:11.509][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.510][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-27 16:02:11.510][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-27 16:02:11.511][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.512][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.513][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-27 16:02:11.513][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-27 16:02:11.513][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-27 16:02:11.513][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-27 16:02:11.513][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-27 16:02:11.514][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-27 16:02:11.515][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.516][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.517][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-27 16:02:11.518][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.519][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.519][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.520][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.521][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-27 16:02:11.522][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-27 16:02:11.523][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.524][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.525][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-27 16:02:11.527][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.527][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-27 16:02:11.528][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.529][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-27 16:02:11.530][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.531][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.537][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.538][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-27 16:02:11.539][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-27 16:02:11.540][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.541][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-27 16:02:11.542][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-27 16:02:11.543][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.544][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.544][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-27 16:02:11.544][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-27 16:02:11.544][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-27 16:02:11.544][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-27 16:02:11.544][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-27 16:02:11.545][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-27 16:02:11.546][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.548][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-27 16:02:11.549][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.550][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.551][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.552][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.552][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-27 16:02:11.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-27 16:02:11.554][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.555][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.556][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-27 16:02:11.558][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.559][self$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[2025-09-27 16:02:11.560][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.561][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-27 16:02:11.562][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.562][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.563][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.564][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.565][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-27 16:02:11.566][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-27 16:02:11.567][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.568][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-27 16:02:11.569][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-27 16:02:11.570][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.571][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.572][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.573][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-27 16:02:11.573][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.574][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.575][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-27 16:02:11.576][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.577][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.578][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.579][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.580][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-27 16:02:11.580][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-27 16:02:11.581][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.582][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.583][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-27 16:02:11.585][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.586][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-27 16:02:11.587][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.588][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-27 16:02:11.589][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.589][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.590][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.591][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.592][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-27 16:02:11.593][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-27 16:02:11.594][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.595][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-27 16:02:11.596][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-27 16:02:11.597][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.598][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.599][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.600][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-27 16:02:11.601][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.602][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-27 16:02:11.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.605][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.606][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.607][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-27 16:02:11.607][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-27 16:02:11.608][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.609][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:11.613][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-27 16:02:11.614][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.681][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-27 16:02:11.686][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-27 16:02:11.691][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-27 16:02:11.692][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-27 16:02:11.694][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-27 16:02:11.695][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-27 16:02:11.696][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-27 16:02:11.697][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-27 16:02:11.699][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-27 16:02:11.700][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-27 16:02:11.701][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-27 16:02:11.703][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-27 16:02:11.704][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-27 16:02:11.705][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-27 16:02:11.706][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-27 16:02:11.708][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-27 16:02:11.709][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-27 16:02:11.710][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-27 16:02:11.712][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-27 16:02:11.713][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-27 16:02:11.714][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-27 16:02:11.715][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-27 16:02:11.717][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-27 16:02:11.718][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-27 16:02:11.719][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-27 16:02:11.721][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-27 16:02:11.722][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-27 16:02:11.723][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-27 16:02:11.724][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-27 16:02:11.726][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-27 16:02:11.727][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-27 16:02:11.728][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-27 16:02:11.730][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-27 16:02:11.731][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-27 16:02:11.732][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-27 16:02:11.733][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-27 16:02:11.735][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-27 16:02:11.736][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-27 16:02:11.737][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-27 16:02:11.738][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-27 16:02:11.740][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-27 16:02:11.741][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-27 16:02:11.742][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-27 16:02:11.744][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-27 16:02:11.745][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-27 16:02:11.746][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-27 16:02:11.748][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-27 16:02:11.749][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-27 16:02:11.750][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-27 16:02:11.751][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-27 16:02:11.753][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-27 16:02:11.754][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-27 16:02:11.755][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-27 16:02:11.757][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-27 16:02:11.758][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-27 16:02:11.759][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-27 16:02:11.760][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-27 16:02:11.762][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-27 16:02:11.763][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-27 16:02:11.764][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-27 16:02:11.765][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-27 16:02:11.767][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-27 16:02:11.772][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-27 16:02:11.774][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-27 16:02:11.776][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-27 16:02:11.777][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-27 16:02:11.779][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-27 16:02:11.780][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-27 16:02:11.782][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-27 16:02:11.783][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-27 16:02:11.785][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-27 16:02:11.786][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-27 16:02:11.788][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-27 16:02:11.789][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-27 16:02:11.790][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-27 16:02:11.792][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-27 16:02:11.793][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-27 16:02:11.795][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-27 16:02:11.796][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-27 16:02:11.798][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-27 16:02:11.799][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-27 16:02:11.800][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-27 16:02:11.802][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-27 16:02:11.809][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-27 16:02:11.811][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-09-27 16:02:11.814][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-27 16:02:11.815][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.817][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.WARN [2025-09-27 16:02:11.937][private$checkKey] Key persistent.cache.impl is deprecated. Persistent cache is now handled by the fscache CRAN package. This field is now useless.
biodb.WARN [2025-09-27 16:02:11.946][private$checkKey] Key persistent.cache.impl is deprecated. Persistent cache is now handled by the fscache CRAN package. This field is now useless.
biodb.DEBUG[2025-09-27 16:02:11.959][biodb$getConfig()$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-09-27 16:02:11.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-27 16:02:11.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:11.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:11.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:11.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:11.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:11.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-27 16:02:11.966][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbHmdb.Rcheck/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-09-27 16:02:11.975][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-09-27 16:02:11.977][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.977][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.978][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.979][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-27 16:02:11.980][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.981][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-09-27 16:02:11.982][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.983][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.984][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-27 16:02:11.985][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-27 16:02:11.986][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:11.987][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-09-27 16:02:11.988][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-09-27 16:02:11.989][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-09-27 16:02:11.990][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-27 16:02:11.991][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-27 16:02:11.991][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-09-27 16:02:11.991][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-09-27 16:02:11.992][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-27 16:02:11.992][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.993][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.994][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-27 16:02:11.995][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-27 16:02:11.996][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-27 16:02:11.997][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-27 16:02:11.998][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-09-27 16:02:11.998][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-09-27 16:02:11.999][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-27 16:02:11.999][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-27 16:02:12.000][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-27 16:02:12.001][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-27 16:02:12.007][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-09-27 16:02:12.012][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-27 16:02:12.013][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-27 16:02:12.014][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-27 16:02:12.016][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-27 16:02:12.036][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-09-27 16:02:12.050][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.INFO [2025-09-27 16:02:12.057][biodb::testThat]
biodb.INFO [2025-09-27 16:02:12.058][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-27 16:02:12.059][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:12.060][biodb::testThat]
biodb.TRACE[2025-09-27 16:02:12.063][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbHmdb.Rcheck/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-09-27 16:02:12.065][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-09-27 16:02:12.068][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-09-27 16:02:12.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-27 16:02:12.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:12.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:12.088][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:12.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:12.090][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:12.091][FUN] Functions in observer BiodbConfig: [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[2025-09-27 16:02:12.102][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.103][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.104][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.121][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.122][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.124][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.148][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.151][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.152][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.154][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.159][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.160][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.163][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.167][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.168][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.178][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.183][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.184][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.186][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.191][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.192][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.194][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.195][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.199][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.199][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.201][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.202][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.206][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.207][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.209][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.210][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.214][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.215][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.217][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.218][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.221][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.222][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.224][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.229][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:12.230][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:12.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:12.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:12.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.239][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.244][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.245][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.247][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.252][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.253][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.259][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.260][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.262][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.263][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.267][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:12.268][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:12.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.269][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.271][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:12.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:12.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.274][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-09-27 16:02:12.275][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.277][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.278][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-09-27 16:02:12.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.363][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.366][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.370][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.374][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.378][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.381][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:12.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.407][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.410][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.414][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:12.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.418][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.421][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.425][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:12.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.429][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.432][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.436][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.443][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.446][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.450][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.454][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.457][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.465][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:12.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:12.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:12.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:12.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:12.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:12.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.483][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.487][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.490][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.494][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.516][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.519][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.523][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.527][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.530][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.534][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.538][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.541][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:12.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:12.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.545][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:12.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:12.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.549][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:12.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:12.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.552][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-27 16:02:12.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.570][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-09-27 16:02:12.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:12.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.590][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.593][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.608][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.612][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.619][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-27 16:02:12.645][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-09-27 16:02:12.647][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-27 16:02:12.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-27 16:02:12.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-27 16:02:12.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-27 16:02:12.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.654][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-27 16:02:12.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-27 16:02:12.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.658][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-27 16:02:12.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-27 16:02:12.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.674][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.704][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.708][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.711][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-09-27 16:02:12.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.732][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.733][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.734][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:12.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:12.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.745][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.749][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.753][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.756][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.757][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.759][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.760][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:12.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.781][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.782][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.783][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:12.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.798][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.801][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.805][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.809][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.810][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.811][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.812][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:12.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.833][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.834][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:12.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.846][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.850][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.857][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.858][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.861][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:12.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.881][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.882][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.884][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.885][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:12.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:12.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.895][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.898][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.905][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.909][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.910][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.912][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.913][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:12.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:12.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.930][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.933][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.934][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.936][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:12.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:12.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.947][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.950][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.954][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.957][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.958][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.960][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.961][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:12.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.982][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.982][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.984][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:12.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.995][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:12.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:12.998][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:12.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.002][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.006][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.007][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.008][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.009][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.026][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.030][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.033][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.034][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.036][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.037][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.047][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.050][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.058][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.059][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.060][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.061][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.071][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:13.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:13.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.075][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:13.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:13.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.078][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:13.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:13.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.082][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:13.083][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:13.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.085][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.086][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:13.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:13.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:13.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:13.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:13.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:13.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.103][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:13.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:13.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:13.107][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:13.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.109][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:13.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:13.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.123][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.127][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.134][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.135][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.136][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.147][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.151][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.154][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.158][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.159][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.162][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.171][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-27 16:02:13.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-27 16:02:13.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.174][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.178][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-27 16:02:13.179][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-27 16:02:13.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.181][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.184][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.185][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-09-27 16:02:13.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-27 16:02:13.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-27 16:02:13.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.193][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.197][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:13.198][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-09-27 16:02:13.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.200][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.203][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.204][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-09-27 16:02:13.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.206][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.210][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.211][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-09-27 16:02:13.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.212][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.216][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.217][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-09-27 16:02:13.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.219][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.223][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:13.223][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:13.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.229][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-27 16:02:13.230][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-27 16:02:13.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-27 16:02:13.236][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-27 16:02:13.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.238][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.245][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.246][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-27 16:02:13.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.248][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.251][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:13.252][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-27 16:02:13.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.258][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:13.259][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-27 16:02:13.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.261][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.264][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:13.265][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:13.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.267][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.271][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:13.272][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-09-27 16:02:13.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.273][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.277][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:13.278][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:13.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.280][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.284][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-27 16:02:13.285][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-27 16:02:13.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.286][ef$get] fields variable is a list.
biodb.INFO [2025-09-27 16:02:13.292][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.293][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-27 16:02:13.294][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.295][biodb::testThat]
biodb.DEBUG[2025-09-27 16:02:13.308][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-09-27 16:02:13.309][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-27 16:02:13.312][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-27 16:02:13.339][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-09-27 16:02:13.340][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-09-27 16:02:13.341][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.INFO [2025-09-27 16:02:13.378][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.379][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-27 16:02:13.380][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.381][biodb::testThat]
biodb.TRACE[2025-09-27 16:02:13.384][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:13.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:13.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.386][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-27 16:02:13.387][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.DEBUG[2025-09-27 16:02:13.406][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-09-27 16:02:13.453][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-27 16:02:13.455][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-27 16:02:13.456][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-09-27 16:02:13.457][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-09-27 16:02:13.469][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.INFO [2025-09-27 16:02:13.491][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.492][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-27 16:02:13.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.494][biodb::testThat]
biodb.DEBUG[2025-09-27 16:02:13.500][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-09-27 16:02:13.501][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-27 16:02:13.503][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-27 16:02:13.504][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-09-27 16:02:13.505][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-09-27 16:02:13.506][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.INFO [2025-09-27 16:02:13.517][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.518][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-27 16:02:13.519][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.520][biodb::testThat]
biodb.DEBUG[2025-09-27 16:02:13.523][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-09-27 16:02:13.524][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-09-27 16:02:13.525][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-09-27 16:02:13.527][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-09-27 16:02:13.528][self$download] Extract whole database of hmdb.metabolites.
biodb.INFO [2025-09-27 16:02:13.529][private$doExtractDownload] Extracting content of downloaded',
                    ' HMDB metabolite database...
biodb.INFO [2025-09-27 16:02:13.540][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.541][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-27 16:02:13.542][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.542][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.558][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.559][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-27 16:02:13.560][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.561][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.573][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.574][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-27 16:02:13.575][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.576][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.588][biodb::testThat]
biodb.INFO [2025-09-27 16:02:13.588][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-27 16:02:13.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-27 16:02:13.590][biodb::testThat]
biodb.TRACE[2025-09-27 16:02:13.614][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:13.615][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:13.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.617][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.618][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:13.619][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:13.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.620][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.621][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:13.622][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:13.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.625][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-27 16:02:13.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-27 16:02:13.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.628][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.629][ef$get] Asked field names are: description.
biodb.TRACE[2025-09-27 16:02:13.629][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-09-27 16:02:13.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.631][ef$get] fields variable is a list.
biodb.TRACE[2025-09-27 16:02:13.632][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:13.633][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-09-27 16:02:13.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-27 16:02:13.635][ef$get] fields variable is a list.
biodb.INFO [2025-09-27 16:02:13.636][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-27 16:02:13.637][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-09-27 16:02:13.638][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-27 16:02:13.639][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-27 16:02:13.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-27 16:02:13.640][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-27 16:02:13.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-27 16:02:13.642][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-27 16:02:13.643][FUN] Functions in observer 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 8 | WARN 2 | SKIP 0 | PASS 103 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test_long_100_generic.R:42:1'): RT unit is defined when there is an RT value. ──
Error in `private$doExtractDownload()`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getBiodb()$getFactory()$getEntry(...)
 4.     └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 5.       └─conn$getEntryContent(ids)
 6.         └─self$download()
 7.           └─private$doExtractDownload()
── Error ('test_long_100_generic.R:42:1'): We can search for an entry by searchable field ──
Error in `cch$getTmpFolderPath()`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getEntry(id, drop = TRUE)
 4.     └─private$bdb$getFactory()$getEntry(self$getId(), id = id, drop = drop)
 5.       └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 6.         └─conn$getEntryContent(ids)
 7.           └─self$download()
 8.             └─private$doExtractDownload()
── Error ('test_long_100_generic.R:42:1'): We can search for an entry by name. ──
Error in `cch$getTmpFolderPath()`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getEntry(id, drop = TRUE)
 4.     └─private$bdb$getFactory()$getEntry(self$getId(), id = id, drop = drop)
 5.       └─private$loadEntries(conn$getId(), missing.ids, drop = FALSE)
 6.         └─conn$getEntryContent(ids)
 7.           └─self$download()
 8.             └─private$doExtractDownload()
── Error ('test_long_100_generic.R:42:1'): We can load an entry from the database. ──
Error in `cch$getTmpFolderPath()`: attempt to apply non-function
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, 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$doExtractDownload()
── Error ('test_long_100_generic.R:42:1'): We can get a URL pointing to the entry page. ──
Error in `FUN(X[[i]], ...)`: object 'BiodbUrl' not found
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getEntryPageUrl(ref.ids)
 4.     └─private$doGetEntryPageUrl(entry.id)
 5.       └─base::vapply(id, fct, FUN.VALUE = "")
 6.         └─biodbHmdb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:42:1'): We can get a URL pointing to the entry image. ──
Error in `FUN(X[[i]], ...)`: object 'BiodbUrl' not found
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getEntryImageUrl(ref.ids)
 4.     └─private$doGetEntryImageUrl(entry.id)
 5.       └─base::vapply(id, fct, FUN.VALUE = "")
 6.         └─biodbHmdb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:42:1'): The entry page URL can be downloaded. ──
Error in `FUN(X[[i]], ...)`: object 'BiodbUrl' not found
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getEntryPageUrl(ref.ids[[1]])
 4.     └─private$doGetEntryPageUrl(entry.id)
 5.       └─base::vapply(id, fct, FUN.VALUE = "")
 6.         └─biodbHmdb (local) FUN(X[[i]], ...)
── Error ('test_long_100_generic.R:42:1'): The entry image URL can be downloaded. ──
Error in `FUN(X[[i]], ...)`: object 'BiodbUrl' not found
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
 3.   └─conn$getEntryImageUrl(ref.ids[[1]])
 4.     └─private$doGetEntryImageUrl(entry.id)
 5.       └─base::vapply(id, fct, FUN.VALUE = "")
 6.         └─biodbHmdb (local) FUN(X[[i]], ...)

[ FAIL 8 | WARN 2 | SKIP 0 | PASS 103 ]
Error: Test failures
Execution halted

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbHmdb_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbHmdb.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘biodbHmdb/DESCRIPTION’ ... OK
* this is package ‘biodbHmdb’ version ‘1.15.1’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘biodbHmdb’ can be installed ... WARNING
Found the following significant warnings:
  EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
  EntryMaker.hpp:22:14: warning:   ‘bool EntryMaker::closed’ [-Wreorder]
  EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
See ‘/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbHmdb.Rcheck/00install.out’ for details.
* used C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
* checking installed package size ... INFO
  installed size is  7.2Mb
  sub-directories of 1Mb or more:
    libs   6.7Mb
* 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 loading without being on the library search path ... OK
* checking whether startup messages can be suppressed ... OK
* checking dependencies in R code ... NOTE
Namespace in Imports field not imported from: ‘zip’
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘HmdbMetabolitesConn’ ‘HmdbMetabolitesEntry’ ‘hmdbToSqlite’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking files in ‘vignettes’ ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in ‘longtests’ ... OK
* checking tests in ‘longtests’ ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘longtests/testthat.R’ failed.
Last 13 lines of output:
   6.         └─biodbHmdb (local) FUN(X[[i]], ...)
  ── Error ('test_long_100_generic.R:42:1'): The entry image URL can be downloaded. ──
  Error in `FUN(X[[i]], ...)`: object 'BiodbUrl' not found
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<HmdbMtbC>`, opt = `<named list>`)
   3.   └─conn$getEntryImageUrl(ref.ids[[1]])
   4.     └─private$doGetEntryImageUrl(entry.id)
   5.       └─base::vapply(id, fct, FUN.VALUE = "")
   6.         └─biodbHmdb (local) FUN(X[[i]], ...)
  
  [ FAIL 8 | WARN 2 | SKIP 0 | PASS 103 ]
  Error: Test failures
  Execution halted
* DONE

Status: 1 ERROR, 2 WARNINGs, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbHmdb.Rcheck/00check.log’
for details.

Installation output

biodbHmdb.Rcheck/00install.out

* installing *source* package ‘biodbHmdb’ ...
** this is package ‘biodbHmdb’ version ‘1.15.1’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor ‘EntryMaker::EntryMaker()’:
EntryMaker.hpp:23:21: warning: ‘EntryMaker::accession_tag’ will be initialized after [-Wreorder]
   23 |         TagDetector accession_tag;
      |                     ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning:   ‘bool EntryMaker::closed’ [-Wreorder]
   22 |         bool closed;
      |              ^~~~~~
EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
    5 | EntryMaker::EntryMaker() :
      | ^~~~~~~~~~
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.22-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.22-bioc/R/site-library/testthat/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.22-bioc/R/lib -L/usr/local/lib -o biodbHmdb.so EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -L/home/biocbuild/bbs-3.22-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.22-bioc-longtests/meat/biodbHmdb.Rcheck/00LOCK-biodbHmdb/00new/biodbHmdb/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  ‘biodbHmdb’ 
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning in fun(libname, pkgname) :
  Package 'biodbHmdb' is deprecated and will be removed from Bioconductor
  version 3.23
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning in fun(libname, pkgname) :
  Package 'biodbHmdb' is deprecated and will be removed from Bioconductor
  version 3.23
** testing if installed package keeps a record of temporary installation path
* DONE (biodbHmdb)